From 2e3f396236fd4b6f02c06e23ce3080d7774e5c0c Mon Sep 17 00:00:00 2001 From: l-singh-biomsu Date: Wed, 6 Mar 2024 16:40:46 +0000 Subject: [PATCH] Edited H2B.Z sequence --- .../curated_service/add_h2bz_march2024.ipynb | 470 +++++++++++++----- CURATED_SET/histones.csv | 26 +- 2 files changed, 360 insertions(+), 136 deletions(-) diff --git a/CURATED_SET/curated_service/add_h2bz_march2024.ipynb b/CURATED_SET/curated_service/add_h2bz_march2024.ipynb index 4b7a8cdd..b89be148 100644 --- a/CURATED_SET/curated_service/add_h2bz_march2024.ipynb +++ b/CURATED_SET/curated_service/add_h2bz_march2024.ipynb @@ -41,7 +41,7 @@ { "data": { "text/plain": [ - "((555, 16),\n", + "((561, 16),\n", " Index(['accession', 'type', 'variant_group', 'variant', 'doublet', 'gi',\n", " 'ncbi_gene_id', 'hgnc_gene_name', 'taxonomy_id', 'organism', 'phylum',\n", " 'class', 'taxonomy_group', 'info', 'references', 'sequence'],\n", @@ -61,17 +61,6 @@ "cs.data.shape, cs.data.columns" ] }, - { - "cell_type": "code", - "execution_count": 4, - "metadata": { - "tags": [] - }, - "outputs": [], - "source": [ - "my_columns = cs.data.columns" - ] - }, { "cell_type": "code", "execution_count": 5, @@ -313,120 +302,11 @@ }, { "cell_type": "code", - "execution_count": 8, + "execution_count": null, "metadata": { "tags": [] }, - "outputs": [ - { - "data": { - "text/html": [ - "
\n", - "\n", - "\n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - " \n", - "
accessiontypevariant_groupvariantdoubletgincbi_gene_idhgnc_gene_nametaxonomy_idorganismphylumclasstaxonomy_groupinforeferencessequence
XP_001349046.1XP_001349046.1H2BH2B.ZH2B.Z12451182636329Plasmodium falciparum 3D7ApicomplexaAconoidasidaMSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH...
XP_002369740.1XP_002369740.1H2BH2B.ZH2B.Z237840885508771Toxoplasma gondii ME49ApicomplexaConoidasidaMSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH...
\n", - "
" - ], - "text/plain": [ - " accession type variant_group variant doublet gi \\\n", - "XP_001349046.1 XP_001349046.1 H2B H2B.Z H2B.Z 124511826 \n", - "XP_002369740.1 XP_002369740.1 H2B H2B.Z H2B.Z 237840885 \n", - "\n", - " ncbi_gene_id hgnc_gene_name taxonomy_id \\\n", - "XP_001349046.1 36329 \n", - "XP_002369740.1 508771 \n", - "\n", - " organism phylum class \\\n", - "XP_001349046.1 Plasmodium falciparum 3D7 Apicomplexa Aconoidasida \n", - "XP_002369740.1 Toxoplasma gondii ME49 Apicomplexa Conoidasida \n", - "\n", - " taxonomy_group info references \\\n", - "XP_001349046.1 \n", - "XP_002369740.1 \n", - "\n", - " sequence \n", - "XP_001349046.1 MSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH... \n", - "XP_002369740.1 MSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH... " - ] - }, - "execution_count": 8, - "metadata": {}, - "output_type": "execute_result" - } - ], + "outputs": [], "source": [ "h2bz_sequences = SeqIO.index(\"curated_service/H2BZ.fasta\", \"fasta\")\n", "cs.data.loc[cs.data.index.intersection(list(h2bz_sequences.keys())), :]" @@ -1461,6 +1341,350 @@ "cs.save()" ] }, + { + "cell_type": "code", + "execution_count": 5, + "metadata": { + "tags": [] + }, + "outputs": [ + { + "data": { + "text/plain": [ + "SeqRecord(seq=Seq('MSGKVPSTKSQAAKKTAGKTLGVRYRRKKRIESFALYIYKVLKQVHPETGVSKK...SGV'), id='HISTDB_H2B_Z_0', name='HISTDB_H2B_Z_0', description='HISTDB_H2B_Z_0 CfH2BZt histone H2B.Z [Cytauxzoon felis]', dbxrefs=[])" + ] + }, + "execution_count": 5, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "h2bz_sequences['HISTDB_H2B_Z_0']" + ] + }, + { + "cell_type": "code", + "execution_count": 6, + "metadata": { + "tags": [] + }, + "outputs": [ + { + "data": { + "text/html": [ + "
\n", + "\n", + "\n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + " \n", + "
accessiontypevariant_groupvariantdoubletgincbi_gene_idhgnc_gene_nametaxonomy_idorganismphylumclasstaxonomy_groupinforeferencessequence
XP_013228334.1XP_013228334.1H2BH2B.ZH2B.Z5802Eimeria tenellaApicomplexaConoidasidaDOI:10.5772/intechopen.81409MSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH...
CEM32013.1CEM32013.1H2BH2B.ZH2B.Z1169540Vitrella brassicaformis CCMP3155NoneNoneDOI:10.5772/intechopen.81409MPGKGPAEKRQAAKKTAGKTPAEAGKKRRRKRTESFALYIYKVLKQ...
XP_001610608.1XP_001610608.1H2BH2B.ZH2B.Z484906Babesia bovis T2BoApicomplexaAconoidasidaDOI:10.5772/intechopen.81409MSGKVPSSKSQAAKKTAGKSLGIRYRRKKRIESFSLYIYKVLKQVH...
XP_011128492.1XP_011128492.1H2BH2B.ZH2B.Z110365Gregarina niphandrodesApicomplexaConoidasidaDOI:10.5772/intechopen.81409MSGKGGKQQLAKKTAANKLPSHHLDKNKKRRRRGETFSIYIYKVLR...
XP_628349.1XP_628349.1H2BH2B.ZH2B.Z353152Cryptosporidium parvum Iowa IIApicomplexaConoidasidaDOI:10.5772/intechopen.81409MSGKSGKSIKGPAQKQQAAKKTAGKSPADGGKRKRRKRTESFALYI...
XP_678689.1XP_678689.1H2BH2B.ZH2B.Z680735495823Plasmodium berghei ANKAApicomplexaAconoidasidaMSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH...
XP_001349046.1XP_001349046.1H2BH2B.ZH2B.Z12451182636329Plasmodium falciparum 3D7ApicomplexaAconoidasidaMSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH...
XP_002369740.1XP_002369740.1H2BH2B.ZH2B.Z237840885508771Toxoplasma gondii ME49ApicomplexaConoidasidaMSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH...
HISTDB_H2B_Z_0HISTDB_H2B_Z_0H2BH2B.ZH2B.Z27996Cytauxzoon felisApicomplexaAconoidasidaDOI:10.5772/intechopen.81409MSGKVPSTKSQAAKKTAGKTLGVRYRRKKRIESFALYIYKVLKQVH...
\n", + "
" + ], + "text/plain": [ + " accession type variant_group variant doublet gi \\\n", + "XP_013228334.1 XP_013228334.1 H2B H2B.Z H2B.Z \n", + "CEM32013.1 CEM32013.1 H2B H2B.Z H2B.Z \n", + "XP_001610608.1 XP_001610608.1 H2B H2B.Z H2B.Z \n", + "XP_011128492.1 XP_011128492.1 H2B H2B.Z H2B.Z \n", + "XP_628349.1 XP_628349.1 H2B H2B.Z H2B.Z \n", + "XP_678689.1 XP_678689.1 H2B H2B.Z H2B.Z 68073549 \n", + "XP_001349046.1 XP_001349046.1 H2B H2B.Z H2B.Z 124511826 \n", + "XP_002369740.1 XP_002369740.1 H2B H2B.Z H2B.Z 237840885 \n", + "HISTDB_H2B_Z_0 HISTDB_H2B_Z_0 H2B H2B.Z H2B.Z \n", + "\n", + " ncbi_gene_id hgnc_gene_name taxonomy_id \\\n", + "XP_013228334.1 5802 \n", + "CEM32013.1 1169540 \n", + "XP_001610608.1 484906 \n", + "XP_011128492.1 110365 \n", + "XP_628349.1 353152 \n", + "XP_678689.1 5823 \n", + "XP_001349046.1 36329 \n", + "XP_002369740.1 508771 \n", + "HISTDB_H2B_Z_0 27996 \n", + "\n", + " organism phylum class \\\n", + "XP_013228334.1 Eimeria tenella Apicomplexa Conoidasida \n", + "CEM32013.1 Vitrella brassicaformis CCMP3155 None None \n", + "XP_001610608.1 Babesia bovis T2Bo Apicomplexa Aconoidasida \n", + "XP_011128492.1 Gregarina niphandrodes Apicomplexa Conoidasida \n", + "XP_628349.1 Cryptosporidium parvum Iowa II Apicomplexa Conoidasida \n", + "XP_678689.1 Plasmodium berghei ANKA Apicomplexa Aconoidasida \n", + "XP_001349046.1 Plasmodium falciparum 3D7 Apicomplexa Aconoidasida \n", + "XP_002369740.1 Toxoplasma gondii ME49 Apicomplexa Conoidasida \n", + "HISTDB_H2B_Z_0 Cytauxzoon felis Apicomplexa Aconoidasida \n", + "\n", + " taxonomy_group info references \\\n", + "XP_013228334.1 DOI:10.5772/intechopen.81409 \n", + "CEM32013.1 DOI:10.5772/intechopen.81409 \n", + "XP_001610608.1 DOI:10.5772/intechopen.81409 \n", + "XP_011128492.1 DOI:10.5772/intechopen.81409 \n", + "XP_628349.1 DOI:10.5772/intechopen.81409 \n", + "XP_678689.1 \n", + "XP_001349046.1 \n", + "XP_002369740.1 \n", + "HISTDB_H2B_Z_0 DOI:10.5772/intechopen.81409 \n", + "\n", + " sequence \n", + "XP_013228334.1 MSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH... \n", + "CEM32013.1 MPGKGPAEKRQAAKKTAGKTPAEAGKKRRRKRTESFALYIYKVLKQ... \n", + "XP_001610608.1 MSGKVPSSKSQAAKKTAGKSLGIRYRRKKRIESFSLYIYKVLKQVH... \n", + "XP_011128492.1 MSGKGGKQQLAKKTAANKLPSHHLDKNKKRRRRGETFSIYIYKVLR... \n", + "XP_628349.1 MSGKSGKSIKGPAQKQQAAKKTAGKSPADGGKRKRRKRTESFALYI... \n", + "XP_678689.1 MSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH... \n", + "XP_001349046.1 MSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVH... \n", + "XP_002369740.1 MSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVH... \n", + "HISTDB_H2B_Z_0 MSGKVPSTKSQAAKKTAGKTLGVRYRRKKRIESFALYIYKVLKQVH... " + ] + }, + "execution_count": 6, + "metadata": {}, + "output_type": "execute_result" + } + ], + "source": [ + "cs.data.at['HISTDB_H2B_Z_0', 'taxonomy_id'] = 27996\n", + "cs.data.at['HISTDB_H2B_Z_0', 'organism'] = 'Cytauxzoon felis'\n", + "cs.data.at['HISTDB_H2B_Z_0', 'phylum'] = 'Apicomplexa'\n", + "cs.data.at['HISTDB_H2B_Z_0', 'class'] = 'Aconoidasida'\n", + "cs.data[cs.data[\"variant\"] == \"H2B.Z\"]" + ] + }, + { + "cell_type": "code", + "execution_count": 7, + "metadata": { + "tags": [] + }, + "outputs": [ + { + "name": "stdout", + "output_type": "stream", + "text": [ + "taxonomy_id self \n", + " other 27996\n", + "organism self \n", + " other Cytauxzoon felis\n", + "phylum self \n", + " other Apicomplexa\n", + "class self \n", + " other Aconoidasida\n", + "Name: HISTDB_H2B_Z_0, dtype: object\n", + "cp histones.csv backups/histones.csv-Mar0624163933\n", + "Previous data backuped to backups/histones.csv-Mar0624163933\n", + "Results saved to histones.csv\n" + ] + } + ], + "source": [ + "cs.save()" + ] + }, { "cell_type": "code", "execution_count": null, diff --git a/CURATED_SET/histones.csv b/CURATED_SET/histones.csv index e4e97ac5..04261d7b 100644 --- a/CURATED_SET/histones.csv +++ b/CURATED_SET/histones.csv @@ -387,7 +387,7 @@ XP_628349.1,H2B,H2B.Z,H2B.Z,,,,,353152,Cryptosporidium parvum Iowa II,Apicomplex XP_678689.1,H2B,H2B.Z,H2B.Z,,68073549,,,5823,Plasmodium berghei ANKA,Apicomplexa,Aconoidasida,,,,MSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVHPETGVTKKSMNIMNSFINDIFDRLVTEATRLIRYNKKRTLSSREIQTAVRLLLPGELSKHAVSEGTKAVTKYTTSGA XP_001349046.1,H2B,H2B.Z,H2B.Z,,124511826,,,36329,Plasmodium falciparum 3D7,Apicomplexa,Aconoidasida,,,,MSGKGPAQKSQAAKKTAGKTLGPRHKRKRRTESFSLYIFKVLKQVHPETGVTKKSMNIMNSFINDIFDRLVTEATRLIRYNKKRTLSSREIQTAVRLLLPGELSKHAVSEGTKAVTKYTTSAA XP_002369740.1,H2B,H2B.Z,H2B.Z,,237840885,,,508771,Toxoplasma gondii ME49,Apicomplexa,Conoidasida,,,,MSGKGPAQKSQAAKKTAGKSLGPRYRRRKRTESFALYIYKVLKQVHPETGVSKKSMSIMNSFINDIFDRLADEAVRLIRYNKKRTLSSREIQTAVRLLLPGELSKHAVSEGTKAVTKYTTSGA -HISTDB_H2B_Z_0,H2B,H2B.Z,H2B.Z,,,,,,,,,,,DOI:10.5772/intechopen.81409,MSGKVPSTKSQAAKKTAGKTLGVRYRRKKRIESFALYIYKVLKQVHPETGVSKKSMSIMNSFINDIFDRLALEATRLIRYNKKSTLSSREIQTAVRLLLPGELSKHAVSEGTKAVTKYTTSGV +HISTDB_H2B_Z_0,H2B,H2B.Z,H2B.Z,,,,,27996,Cytauxzoon felis,Apicomplexa,Aconoidasida,,,DOI:10.5772/intechopen.81409,MSGKVPSTKSQAAKKTAGKTLGVRYRRKKRIESFALYIYKVLKQVHPETGVSKKSMSIMNSFINDIFDRLALEATRLIRYNKKSTLSSREIQTAVRLLLPGELSKHAVSEGTKAVTKYTTSGV P02291.2,H2B,sperm_H2B_(Echinoidea),sperm_H2B_(Echinoidea),,108885304,,,7658,Parechinus angulosus,Echinodermata,Echinoidea,,,,MPRSPAKTSPRKGSPRKGSPSRKASPKRGGKGAKRAGKGGRRRRVVKRRRRRRESYGIYIYKVLKQVHPDTGISSRAMSVMNSFVNDVFERIAGEASRLTSANRRSTVSSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTTSR Q27749.3,H2B,sperm_H2B_(Echinoidea),sperm_H2B_(Echinoidea),,74767039,,,7660,Psammechinus miliaris,Echinodermata,Echinoidea,,,,MPSQKSPTKRSPTKRSPQKGGKGAKRGGKAGKRRRGVAVKRRRRRRESYGIYIYKVLKQVHPDTGISSRAMSVMNSFVNDVFERIASEAGRLTTYNRRNTVSSREVQTAVRLLLPGELAKHAVSEGTKAVTKYTTSR Q27750.3,H2B,sperm_H2B_(Echinoidea),sperm_H2B_(Echinoidea),,108860775,,,7660,Psammechinus miliaris,Echinodermata,Echinoidea,,,,MPKSPSKSSPRKGSPRKGSPRKGSPKRGGKGAKRAGKGGRRNVVKRRRRRRESYGIYIYKVLKQVHPDTGISSRGMSVMNSFVNDVFERIAGEASRLTSANRRSTISSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTTARR @@ -451,10 +451,7 @@ NP_009564.1,H3,H3.3,H3.3,,6319482,,,559292,Saccharomyces cerevisiae S288C,Ascomy NP_002098.1,H3,H3.3,H3.3_(Homo_sapiens),,,3020.0,H3-3A,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,19412883,MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA NP_005315.1,H3,H3.3,H3.3_(Homo_sapiens),,,3021.0,H3-3B,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,19412883,MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA NP_001013721.2,H3,H3.5,H3.5_(Homo_sapiens)__???,,,440093.0,H3-5,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,21274551,MARTKQTARKSTGGKAPRKQLATKAARKSTPSTCGVKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFNTDLRFQSAAVGALQEASEAYLVGLLEDTNLCAIHAKRVTIMPKDIQLARRIRGERA -HISTDB_H3_Y_0,H3,H3.Y,H3.Y__???,,NOGI,,,9544,Macaca mulatta,Chordata,Mammalia,,,,ARTKQTARKATNWQAPRKPLATKAAAKRAPPRGGIKKPHRYKPGTQALREIRKYQKSTQLLLRKLPFQCLVREIAQVISLDLRFQSAAIGALQEASEAYLVNLFEDTNLCAIHARRVTIMPRDMQLARRIRGEGAXEPTLLGNVAL -HISTDB_H3_Y_1,H3,H3.Y,H3.Y__???,,NOGI,,,9544,Macaca mulatta,Chordata,Mammalia,,,,ARTKQTARKATNWQAPRKPLATKAPGKRLPPRGGIKKPHRYRPGTQALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVNLFEDTNLCAIHARRVTIMPRDMQLARRIRGEGA -HISTDB_H3_Y_2,H3,H3.Y,H3.Y__???,,NOGI,,,9598,Pan troglodytes,Chordata,Mammalia,,,,ARTKQTARKATAWQAPRKPLATKAAGKRAPPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPRDMQLARRLRREGP -HISTDB_H3_Y_3,H3,H3.Y,H3.Y__???,,NOGI,,,9598,Pan troglodytes,Chordata,Mammalia,,,,ARTKQTARKATAWQAPRKPLATKAARKRASPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISLDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPQDMQLARRLRGEGAREPTLLGNLAL +NP_001342338.1,H3,H3.7(?),H3.7(?)_(Homo_sapiens)__???,,,440686.0,H3-7,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,12408966,MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQEFKTDLRFQSSAVMALQEAREAYLVGLFEDTNLCAIHAKRVTIMPKDIQLVSRIRGERA XP_003804825.1,H3,TS_H3.4,TS_H3.4__???,,397466137,,,9597,Pan paniscus,Chordata,Mammalia,,,,MARTKQTARKSTGGKAPRKQLVTKVARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLMREIAQDFKTDLRFQSSAVMALQEACESYLVGLFEDTNLCVIHAKRVTIMPKDIQLARRIRGERA NP_563627.1,H3,cenH3,cenH3__???,,18378832,,,3702,Arabidopsis thaliana,Streptophyta,Magnoliopsida,,,,MARTKHRVTRSQPRNQTDAAGASSSQAAGPTTTPTRRGGEGGDNTQQTNPTTSPATGTRRGAKRSRQAMPRGSQKKSYRYRPGTVALKEIRHFQKQTNLLIPAASFIREVRSITHMLAPPQINRWTAEALVALQEAAEDYLVGLFSDSMLCAIHARRVTLMRKDFELARRLGGKGRPW NP_596473.1,H3,cenH3,cenH3__???,,19113265,,,4896,Schizosaccharomyces pombe,Ascomycota,Schizosaccharomycetes,,,,MAKKSLMAEPGDPIPRPRKKRYRPGTTALREIRKYQRSTDLLIQRLPFSRIVREISSEFVANFSTDVGLRWQSTALQCLQEAAEAFLVHLFEDTNLCAIHAKRVTIMQRDMQLARRIRGA @@ -469,11 +466,14 @@ XP_002287626.1,H3,cenH3,cenH3__???,,223995905,,,296543,Thalassiosira pseudonana XP_001011273.1,H3,cenH3,cenH3__???,,118356028,,,312017,Tetrahymena thermophila SB210,Ciliophora,Oligohymenophorea,,,,MARKAYQPKRRSNSNQNQQRSDSLKKNKQDNLRSKSAGNQQGNEKNKKDIQDQRNKASTKKKRESSGEKYESARDKVIRRFRPGDNALKQLRQYNQTPSLLIRKLPFQRLIREISTRMTEEDSLRWTSFALVLLQTVVEDYMVSFFEDANACALHAKRVTLMSKDLALAARIRGQKNVTGIFIPTKK XP_002767160.1,H3,cenH3,cenH3__???,,294874934,,,423536,Perkinsus marinus ATCC 50983,Perkinsozoa,None,,,,MVGVENLGVGFDELLTRGGCGVRDDAVEIAFRGVEGLEDVLKDYMVRNKDGKILSVARPVDAEHSEELLGLAAAIGRSYGSLICAAAHNGGVRLPVGKGDDDGDSNNSSDEEADSGCGGAAEGDEAGDVGAGAGDVGDGAGDGAAEGDGAGDAGNGAGDVGDVGDGAGDGAAEGDGAGDGAADDAHGAGDDGEGSRNGGPPLVVQMMVLVMMNGNGNGADDGGNGVDDGEGDGDGHQGNVEGDGHGDGQDDGDGEGSVDSSGNGGDSEPSLEVSREGSENRPKLLPPVEGRTSSSAAAIAAPPVPSAGSHIITGSGGKVPTAGKRPRQFVKKSSAKKGRYRPGTVALREIRRHQEITDPLIEKRCFQALARSLSREVEASMRWQPQSLVALQEASESFIVGMLEASQLLAVHGRRITLMEKDVKMWTRLAAMFGSTTFMDQEKQVGGT NP_012875.2,H3,cenH3,cenH3__???,,27808712,,,559292,Saccharomyces cerevisiae S288C,Ascomycota,Saccharomycetes,,,,MSSKQQWVSSAIQSDSSGRSLSNVNRLAGDQQSINDRALSLLQRTRATKNLFPRREERRRYESSKSDLDIETDYEDQAGNLEIETENEEEAEMETEVPAPVRTHSYALDRYVRQKRREKQRKQSLKRVEKKYTPSELALYEIRKYQRSTDLLISKIPFARLVKEVTDEFTTKDQDLRWQSMAIMALQEASEAYLVGLLEHTNLLALHAKRITIMKKDMQLARRIRGQFI -NP_001358848.1,H3,H3.Y,H3.Y.2_(Homo_sapiens)__???,,,340096.0,H3Y2,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,20819935,MARTKQTARKATAWQAPRKPLATKAARKRASPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPRDMQLARRLRGEGAGEPTLLGNLAL -XP_003954426.1,H3,H3.5,H3.5__???,,410046862,,,9598,Pan troglodytes,Chordata,Mammalia,,,,MARTKQTARKSTGGKAPRKQLATKAARKSTPSTXGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFNTDLRFQSAAVGALQEASEAYLVGLLEDTNLCAIHAKRVTIMPKDIQLARRIRGERA +HISTDB_H3_Y_0,H3,H3.Y,H3.Y__???,,NOGI,,,9544,Macaca mulatta,Chordata,Mammalia,,,,ARTKQTARKATNWQAPRKPLATKAAAKRAPPRGGIKKPHRYKPGTQALREIRKYQKSTQLLLRKLPFQCLVREIAQVISLDLRFQSAAIGALQEASEAYLVNLFEDTNLCAIHARRVTIMPRDMQLARRIRGEGAXEPTLLGNVAL +HISTDB_H3_Y_1,H3,H3.Y,H3.Y__???,,NOGI,,,9544,Macaca mulatta,Chordata,Mammalia,,,,ARTKQTARKATNWQAPRKPLATKAPGKRLPPRGGIKKPHRYRPGTQALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVNLFEDTNLCAIHARRVTIMPRDMQLARRIRGEGA +HISTDB_H3_Y_2,H3,H3.Y,H3.Y__???,,NOGI,,,9598,Pan troglodytes,Chordata,Mammalia,,,,ARTKQTARKATAWQAPRKPLATKAAGKRAPPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPRDMQLARRLRREGP +HISTDB_H3_Y_3,H3,H3.Y,H3.Y__???,,NOGI,,,9598,Pan troglodytes,Chordata,Mammalia,,,,ARTKQTARKATAWQAPRKPLATKAARKRASPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISLDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPQDMQLARRLRGEGAREPTLLGNLAL NP_001342187.1,H3,H3.Y,H3.Y.1_(Homo_sapiens)__???,,,391769.0,H3Y1,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,20819935,MARTKQTARKATAWQAPRKPLATKAAGKRAPPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPRDMQLARRLRREGP -NP_001342338.1,H3,H3.7(?),H3.7(?)_(Homo_sapiens)__???,,,440686.0,H3-7,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,12408966,MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQEFKTDLRFQSSAVMALQEAREAYLVGLFEDTNLCAIHAKRVTIMPKDIQLVSRIRGERA NP_003484.1,H3,H3.4,H3.4_(Homo_sapiens)__???,,,8290.0,H3-4,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,8986613,MARTKQTARKSTGGKAPRKQLATKVARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLMREIAQDFKTDLRFQSSAVMALQEACESYLVGLFEDTNLCVIHAKRVTIMPKDIQLARRIRGERA +NP_001358848.1,H3,H3.Y,H3.Y.2_(Homo_sapiens)__???,,,340096.0,H3Y2,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,20819935,MARTKQTARKATAWQAPRKPLATKAARKRASPTGGIKKPHRYKPGTLALREIRKYQKSTQLLLRKLPFQRLVREIAQAISPDLRFQSAAIGALQEASEAYLVQLFEDTNLCAIHARRVTIMPRDMQLARRLRGEGAGEPTLLGNLAL +XP_003954426.1,H3,H3.5,H3.5__???,,410046862,,,9598,Pan troglodytes,Chordata,Mammalia,,,,MARTKQTARKSTGGKAPRKQLATKAARKSTPSTXGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFNTDLRFQSAAVGALQEASEAYLVGLLEDTNLCAIHAKRVTIMPKDIQLARRIRGERA NP_001800.1,H3,cenH3,cenH3_(Homo_sapiens)__???,,,1058.0,CENPA,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,23324462,MGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLAREICVKFTRGVDFNWQAQALLALQEAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIRGLEEGLG NP_001035891.1,H3,cenH3,cenH3_(Homo_sapiens)__???,,,1058.0,CENPA,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,23324462,MGPRRRSRKPEAPRRRSPSPTPTPGPSRRGPSLGASSHQHSRRRQGWLKEIRKLQKSTHLLIRKLPFSRLAAEAFLVHLFEDAYLLTLHAGRVTLFPKDVQLARRIRGLEEGLG NP_180441.1,H4,cH4,cH4,,15226944,,,3702,Arabidopsis thaliana,Streptophyta,Magnoliopsida,,,,MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG @@ -549,14 +549,14 @@ NP_001080265.1,H1,H1.10,H1.10,,147898445,,,8355,Xenopus laevis,Chordata,Amphibia ACO10502.1,H1,H1.10,H1.10,,225709312,,,217165,Caligus rogercresseyi,Arthropoda,Hexanauplia,,,,MVKSEVEVTINAEEAPVASSLKPAKKKKNKKKKNKPGKYSVLVLDAVKKLNERSGSSLVKIYNEAKKASWFDEQNGRTYLRYSIRALVLNNTLIQVKGMGANGSFRLNEDKFAKGVPKKTQSKPAKNTTKTAKASTTKKATVVKAKSSPKKAPDAKMPAAKLKKLGVKKVSAAQKNKKPKKASKPPAKSPRKK NP_015198.1,H1,scH1,scH1,,6325130,,,559292,Saccharomyces cerevisiae S288C,Ascomycota,Saccharomycetes,,,,MAPKKSTTKTTSKGKKPATSKGKEKSTSKAAIKKTTAKKEEASSKSYRELIIEGLTALKERKGSSRPALKKFIKENYPIVGSASNFDLYFNNAIKKGVEAGDFEQPKGPAGAVKLAKKKSPEVKKEKEVSPKPKQAATSVSATASKAKAASTKLAPKKVVKKKSPTVTAKKASSPSSLTYKEMILKSMPQLNDGKGSSRIVLKKYVKDTFSSKLKTSSNFDYLFNSAIKKCVENGELVQPKGPSGIIKLNKKKVKLST XP_011105792.1,H1,scH1,scH1,,748455219,,,1160507,Saccharomyces arboricola H-6,Ascomycota,Saccharomycetes,,,,MAPKKTSTKTTTTNKGKKPVTSKGKDKPVIKTAVKKNAAKKEEPSSKSYKELIVEGLAALKERKGSSRPALKKFIKENYPLVGSTSNFDLYFNNAIKKGVETGDFEQPKGPAGTLKLAKKKSPELKKETSPKPKQAAAATTTTTTTTPTSLKAKAKTASKKQAPKKVVKKKVPAVAVIPKKTSSPSALTYKEMILKSMPELNDGKGSSRIVLKKYVKDTFSSKLKTSSNFDYLFNSAIKKCVENGELVQPKGPSGIIKINKKKAKLST -NP_006017.1,H1,H1.10,H1.10_(Homo_sapiens)__???,,,8971.0,H1-10,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSVELEEALPVTTAEGMAKKVTKAGGSAALSPSKKRKNSKKKNQPGKYSQLVVETIRRLGERNGSSLAKIYTEAKKVPWFDQQNGRTYLKYSIKALVQNDTLLQVKGTGANGSFKLNRKKLEGGGERRGAPAAATAPAPTAHKAKKAAPGAAGSRRADKKPARGQKPEQRSHKKGAGAKKDKGGKAKKTAAAGGKKVKKAAKPSVPKVPKGRK +NP_005311.1,H1,H1.3,H1.3_(Homo_sapiens)__???,,,3007.0,H1-3,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPLAPTIPAPAEKTPVKKKAKKAGATAGKRKASGPPVSELITKAVAASKERSGVSLAALKKALAAAGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEGKPKAKKAGAAKPRKPAGAAKKPKKVAGAATPKKSIKKTPKKVKKPATAAGTKKVAKSAKKVKTPQPKKAAKSPAKAKAPKPKAAKPKSGKPKVTKAKKAAPKKK +NP_861453.1,H1,H1.7,H1.7_(Homo_sapiens)__???,,,341567.0,H1-7,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MEQALTGEAQSRWPRRGGSGAMAEAPGPSGESRGHSATQLPAEKTVGGPSRGCSSSVLRVSQLVLQAISTHKGLTLAALKKELRNAGYEVRRKSGRHEAPRGQAKATLLRVSGSDAAGYFRVWKVPKPRRKPGRARQEEGTRAPWRTPAAPRSSRRRRQPLRKAARKAREVWRRNARAKAKANARARRTRRARPRAKEPPCARAKEEAGATAADEGRGQAVKEDTTPRSGKDKRRSSKPREEKQEPKKPAQRTIQ NP_005316.1,H1,H1.1,H1.1_(Homo_sapiens)__???,,,3024.0,H1-1,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETVPPAPAASAAPEKPLAGKKAKKPAKAAAASKKKPAGPSVSELIVQAASSSKERGGVSLAALKKALAAAGYDVEKNNSRIKLGIKSLVSKGTLVQTKGTGASGSFKLNKKASSVETKPGASKVATKTKATGASKKLKKATGASKKSVKTPKKAKKPAATRKSSKNPKKPKTVKPKKVAKSPAKAKAVKPKAAKARVTKPKTAKPKKAAPKKK NP_005313.1,H1,H1.5,H1.5_(Homo_sapiens)__???,,,3009.0,H1-5,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPAETATPAPVEKSPAKKKATKKAAGAGAAKRKATGPPVSELITKAVAASKERNGLSLAALKKALAAGGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEAKPKAKKAGAAKAKKPAGATPKKAKKAAGAKKAVKKTPKKAKKPAAAGVKKVAKSPKKAKAAAKPKKATKSPAKPKAVKPKAAKPKAAKPKAAKPKAAKAKKAAAKKK NP_722575.1,H1,H1.8,H1.8_(Homo_sapiens)__???,,,132243.0,H1-8,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MAPGSVTSDISPSSTSTAGSSRSPESEKPGPSHGGVPPGGPSHSSLPVGRRHPPVLRMVLEALQAGEQRRGTSVAAIKLYILHKYPTVDVLRFKYLLKQALATGMRRGLLARPLNSKARGATGSFKLVPKHKKKIQPRKMAPATAPRRAGEAKGKGPKKPSEAKEDPPNVGKVKKAAKRPAKVQKPPPKPGAATEKARKQGGAAKDTRAQSGEARKVPPKPDKAMRAPSSAGGLSRKAKAKGSRSSQGDAEAYRKTKAESKSSKPTASKVKNGAASPTKKKVVAKAKAPKAGQGPNTKAAAPAKGSGSKVVPAHLSRKTEAPKGPRKAGLPIKASSSKVSSQRAEA NP_001295191.1,H1,H1.8,H1.8_(Homo_sapiens)__???,,,132243.0,H1-8,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MAPATAPRRAGEAKGKGPKKPSEAKEDPPNVGKVKKAAKRPAKVQKPPPKPGAATEKARKQGGAAKDTRAQSGEARKVPPKPDKAMRAPSSAGGLSRKAKAKGSRSSQGDAEAYRKTKAESKSSKPTASKVKNGAASPTKKKVVAKAKAPKAGQGPNTKAAAPAKGSGSKVVPAHLSRKTEAPKGPRKAGLPIKASSSKVSSQRAEA -NP_005311.1,H1,H1.3,H1.3_(Homo_sapiens)__???,,,3007.0,H1-3,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPLAPTIPAPAEKTPVKKKAKKAGATAGKRKASGPPVSELITKAVAASKERSGVSLAALKKALAAAGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEGKPKAKKAGAAKPRKPAGAAKKPKKVAGAATPKKSIKKTPKKVKKPATAAGTKKVAKSAKKVKTPQPKKAAKSPAKAKAPKPKAAKPKSGKPKVTKAKKAAPKKK -NP_005310.1,H1,H1.2,H1.2_(Homo_sapiens)__???,,,3006.0,H1-2,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPAAPAAAPPAEKAPVKKKAAKKAGGTPRKASGPPVSELITKAVAASKERSGVSLAALKKALAAAGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEAKPKVKKAGGTKPKKPVGAAKKPKKAAGGATPKKSAKKTPKKAKKPAAATVTKKVAKSPKKAKVAKPKKAAKSAAKAVKPKAAKPKVVKPKKAAPKKK -NP_861453.1,H1,H1.7,H1.7_(Homo_sapiens)__???,,,341567.0,H1-7,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MEQALTGEAQSRWPRRGGSGAMAEAPGPSGESRGHSATQLPAEKTVGGPSRGCSSSVLRVSQLVLQAISTHKGLTLAALKKELRNAGYEVRRKSGRHEAPRGQAKATLLRVSGSDAAGYFRVWKVPKPRRKPGRARQEEGTRAPWRTPAAPRSSRRRRQPLRKAARKAREVWRRNARAKAKANARARRTRRARPRAKEPPCARAKEEAGATAADEGRGQAVKEDTTPRSGKDKRRSSKPREEKQEPKKPAQRTIQ NP_005312.1,H1,H1.4,H1.4_(Homo_sapiens)__???,,,3008.0,H1-4,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPAAPAAPAPAEKTPVKKKARKSAGAAKRKASGPPVSELITKAVAASKERSGVSLAALKKALAAAGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEAKPKAKKAGAAKAKKPAGAAKKPKKATGAATPKKSAKKTPKKAKKPAAAAGAKKAKSPKKAKAAKPKKAPKSPAKAKAVKPKAAKPKTAKPKAAKPKKAAAKKK -NP_005314.2,H1,H1.6,H1.6_(Homo_sapiens)__???,,,3010.0,H1-6,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETVPAASASAGVAAMEKLPTKKRGRKPAGLISASRKVPNLSVSKLITEALSVSQERVGMSLVALKKALAAAGYDVEKNNSRIKLSLKSLVNKGILVQTRGTGASGSFKLSKKVIPKSTRSKAKKSVSAKTKKLVLSRDSKSPKTAKTNKRAKKPRATTPKTVRSGRKAKGAKGKQQQKSPVKARASKSKLTQHHEVNVRKATSKK NP_005309.1,H1,H1.0,H1.0_(Homo_sapiens)__???,,,3005.0,H1-0,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MTENSTSAPAAKPKRAKASKKSTDHPKYSDMIVAAIQAEKNRAGSSRQSIQKYIKSHYKVGENADSQIKLSIKRLVTTGVLKQTKGVGASGSFRLAKSDEPKKSVAFKKTKKEIKKVATPKKASKPKKAASKAPTKKPKATPVKKAKKKLAATPKKAKKPKTVKAKPVKASKPKKAKPVKPKAKSSAKRAGKKK +NP_005310.1,H1,H1.2,H1.2_(Homo_sapiens)__???,,,3006.0,H1-2,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETAPAAPAAAPPAEKAPVKKKAAKKAGGTPRKASGPPVSELITKAVAASKERSGVSLAALKKALAAAGYDVEKNNSRIKLGLKSLVSKGTLVQTKGTGASGSFKLNKKAASGEAKPKVKKAGGTKPKKPVGAAKKPKKAAGGATPKKSAKKTPKKAKKPAAATVTKKVAKSPKKAKVAKPKKAAKSAAKAVKPKAAKPKVVKPKKAAPKKK +NP_005314.2,H1,H1.6,H1.6_(Homo_sapiens)__???,,,3010.0,H1-6,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSETVPAASASAGVAAMEKLPTKKRGRKPAGLISASRKVPNLSVSKLITEALSVSQERVGMSLVALKKALAAAGYDVEKNNSRIKLSLKSLVNKGILVQTRGTGASGSFKLSKKVIPKSTRSKAKKSVSAKTKKLVLSRDSKSPKTAKTNKRAKKPRATTPKTVRSGRKAKGAKGKQQQKSPVKARASKSKLTQHHEVNVRKATSKK +NP_006017.1,H1,H1.10,H1.10_(Homo_sapiens)__???,,,8971.0,H1-10,9606,Homo sapiens,Chordata,Mammalia,Mammalia,,26689747,MSVELEEALPVTTAEGMAKKVTKAGGSAALSPSKKRKNSKKKNQPGKYSQLVVETIRRLGERNGSSLAKIYTEAKKVPWFDQQNGRTYLKYSIKALVQNDTLLQVKGTGANGSFKLNRKKLEGGGERRGAPAAATAPAPTAHKAKKAAPGAAGSRRADKKPARGQKPEQRSHKKGAGAKKDKGGKAKKTAAAGGKKVKKAAKPSVPKVPKGRK