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Xavier Grand
bolero
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5ef29464
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5ef29464
authored
9 months ago
by
Xavier Grand
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Add references HBV preCore in data/
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data/HBV_preCore_reference_bolero.fasta
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data/HBV_preCore_reference_bolero.fasta
data/HBV_preCore_reference_bolero.gtf
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data/HBV_preCore_reference_bolero.fasta
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5ef29464
>preCore_XGR :: Concatenation 122nuc_progenomic_NC_003988.2_BeforeATG2
GACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTGCCTTCTGACTTCTTTCCTTCAGTACGAGATCTTCTAGATACCGCCTCAGCTCTGTATCGGGAAGCCTTAGAGTCTCCTGAGCATTGTTCACCTCACCATACTGCACTCAGGCAAGCAATTCTTTGCTGGGGGGAACTAATGACTCTAGCTACCTGGGTGGGTGTTAATTTGGAAGATCCAGCGTCTAGAGACCTAGTAGTCAGTTATGTCAACACTAATATGGGCCTAAAGTTCAGGCAACTCTTGTGGTTTCACATTTCTTGTCTCACTTTTGGAAGAGAAACAGTTATAGAGTATTTGGTGTCTTTCGGAGTGTGGATTCGCACTCCTCCAGCTTATAGACCACCAAATGCCCCTATCCTATCAACACTTCCGGAGACTACTGTTGTTAGACGACGAGGCAGGTCCCCTAGAAGAAGAACTCCCTCGCCTCGCAGACGAAGGTCTCAATCGCCGCGTCGCAGAAGATCTCAATCTCGGGAATCTCAATGTTAGTATTCCTTGGACTCATAAGGTGGGGAACTTTACTGGGCTTTATTCTTCTACTGTACCTGTCTTTAATCCTCATTGGAAAACACCATCTTTTCCTAATATACATTTACACCAAGACATTATCAAAAAATGTGAACAGTTTGTAGGCCCACTCACAGTTAATGAGAAAAGAAGATTGCAATTGATTATGCCTGCCAGGTTTTATCCAAAGGTTACCAAATATTTACCATTGGATAAGGGTATTAAACCTTATTATCCAGAACATCTAGTTAATCATTACTTCCAAACTAGACACTATTTACACACTCTATGGAAGGCGGGTATATTATATAAGAGAGAAACAACACATAGCGCCTCATTTTGTGGGTCACCATATTCTTGGGAACAAGATCTACAGCATGGGGCAGAATCTTTCCACCAGCAATCCTCTGGGATTCTTTCCCGACCACCAGTTGGATCCAGCCTTCAGAGCAAACACCGCAAATCCAGATTGGGACTTCAATCCCAACAAGGACACCTGGCCAGACGCCAACAAGGTAGGAGCTGGAGCATTCGGGCTGGGTTTCACCCCACCGCACGGAGGCCTTTTGGGGTGGAGCCCTCAGGCTCAGGGCATACTACAAACTTTGCCAGCAAATCCGCCTCCTGCCTCCACCAATCGCCAGTCAGGAAGGCAGCCTACCCCGCTGTCTCCACCTTTGAGAAACACTCATCCTCAGGCCATGCAGTGGAATTCCACAACCTTCCACCAAACTCTGCAAGATCCCAGAGTGAGAGGCCTGTATTTCCCTGCTGGTGGCTCCAGTTCAGGAACAGTAAACCCTGTTCTGACTACTGCCTCTCCCTTATCGTCAATCTTCTCGAGGATTGGGGACCCTGCGCTGAACATGGAGAACATCACATCAGGATTCCTAGGACCCCTTCTCGTGTTACAGGCGGGGTTTTTCTTGTTGACAAGAATCCTCACAATACCGCAGAGTCTAGACTCGTGGTGGACTTCTCTCAATTTTCTAGGGGGAACTACCGTGTGTCTTGGCCAAAATTCGCAGTCCCCAACCTCCAATCACTCACCAACCTCTTGTCCTCCAACTTGTCCTGGTTATCGCTGGATGTGTCTGCGGCGTTTTATCATCTTCCTCTTCATCCTGCTGCTATGCCTCATCTTCTTGTTGGTTCTTCTGGACTATCAAGGTATGTTGCCCGTTTGTCCTCTAATTCCAGGATCCTCAACAACCAGCACGGGACCATGCCGGACCTGCATGACTACTGCTCAAGGAACCTCTATGTATCCCTCCTGTTGCTGTACCAAACCTTCGGACGGAAATTGCACCTGTATTCCCATCCCATCATCCTGGGCTTTCGGAAAATTCCTATGGGAGTGGGCCTCAGCCCGTTTCTCCTGGCTCAGTTTACTAGTGCCATTTGTTCAGTGGTTCGTAGGGCTTTCCCCCACTGTTTGGCTTTCAGTTATATGGATGATGTGGTATTGGGGGCCAAGTCTGTACAGCATCTTGAGTCCCTTTTTACCGCTGTTACCAATTTTCTTTTGTCTTTGGGTATACATTTAAACCCTAACAAAACAAAGAGATGGGGTTACTCTCTAAATTTTATGGGTTATGTCATTGGATGTTATGGGTCCTTGCCACAAGAACACATCATACAAAAAATCAAAGAATGTTTTAGAAAACTTCCTATTAACAGGCCTATTGATTGGAAAGTATGTCAACGAATTGTGGGTCTTTTGGGTTTTGCTGCCCCTTTTACACAATGTGGTTATCCTGCGTTGATGCCTTTGTATGCATGTATTCAATCTAAGCAGGCTTTCACTTTCTCGCCAACTTACAAGGCCTTTCTGTGTAAACAATACCTGAACCTTTACCCCGTTGCCCGGCAACGGCCAGGTCTGTGCCAAGTGTTTGCTGACGCAACCCCCACTGGCTGGGGCTTGGTCATGGGCCATCAGCGCATGCGTGGAACCTTTTCGGCTCCTCTGCCGATCCATACTGCGGAACTCCTAGCCGCTTGTTTTGCTCGCAGCAGGTCTGGAGCAAACATTATCGGGACTGATAACTCTGTTGTCCTATCCCGCAAATATACATCGTTTCCATGGCTGCTAGGCTGTGCTGCCAACTGGATCCTGCGCGGGACGTCCTTTGTTTACGTCCCGTCGGCGCTGAATCCTGCGGACGACCCTTCTCGGGGTCGCTTGGGACTCTCTCGTCCCCTTCTCCGTCTGCCGTTCCGACCGACCACGGGGCGCACCTCTCTTTACGCGGACTCCCCGTCTGTGCCTTCTCATCTGCCGGACCGTGTGCACTTCGCTTCACCTCTGCACGTCGCATGGAGACCACCGTGAACGCCCACCAAATATTGCCCAAGGTCTTACATAAGAGGACTCTTGGACTCTCAGCAATGTCAACGACCGACCTTGAGGCATACTTCAAAGACTGTTTGTTTAAAGACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGA
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data/HBV_preCore_reference_bolero.gtf
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# GTF file produced by Xavier Grand
# 12/01/2022
# First nucleotides correspond to -122 nuc before ATG of preCore
# Each transcript starts at TSS according to Stadelmayer et al. 2020)
preCore_XGR XGR_manual transcript 1 3421 . + . gene_name "preCore";gene_id "preCore";transcript_id "preCore"
preCore_XGR XGR_manual exon 1 3421 . + . gene_name "preCore";gene_id "preCore";transcript_id "preCore";exon_number "1"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "pgRNA";gene_id "pgRNA";transcript_id "pgRNA"
preCore_XGR XGR_manual exon 127 3421 . + . gene_name "pgRNA";gene_id "pgRNA";transcript_id "pgRNA";exon_number "1"
preCore_XGR XGR_manual transcript 2907 3421 . + . gene_name "S-HBx";gene_id "S-HBx";transcript_id "S-HBx"
preCore_XGR XGR_manual exon 2907 3421 . + . gene_name "S-HBx";gene_id "S-HBx";transcript_id "S-HBx";exon_number "1"
preCore_XGR XGR_manual transcript 2554 3421 . + . gene_name "LHBx";gene_id "LHBx";transcript_id "LHBx"
preCore_XGR XGR_manual exon 2554 3421 . + . gene_name "LHBx";gene_id "LHBx";transcript_id "LHBx";exon_number "1"
preCore_XGR XGR_manual transcript 2732 3421 . + . gene_name "M-HBx";gene_id "M-HBx";transcript_id "M-HBx"
preCore_XGR XGR_manual exon 2732 3421 . + . gene_name "M-HBx";gene_id "M-HBx";transcript_id "M-HBx";exon_number "1"
preCore_XGR XGR_manual transcript 1114 3421 . + . gene_name "preS1";gene_id "preS1";transcript_id "preS1"
preCore_XGR XGR_manual exon 1114 3421 . + . gene_name "preS1";gene_id "preS1";transcript_id "preS1";exon_number "1"
preCore_XGR XGR_manual transcript 1466 3421 . + . gene_name "preS2";gene_id "preS2";transcript_id "preS2"
preCore_XGR XGR_manual exon 1466 3421 . + . gene_name "preS2";gene_id "preS2";transcript_id "preS2";exon_number "1"
preCore_XGR XGR_manual transcript 1496 3421 . + . gene_name "HbsAg";gene_id "HbsAg";transcript_id "HbsAg"
preCore_XGR XGR_manual exon 1496 3421 . + . gene_name "HbsAg";gene_id "HbsAg";transcript_id "HbsAg";exon_number "1"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP01";gene_id "SP01";transcript_id "SP01"
preCore_XGR XGR_manual exon 127 756 . + . gene_name "SP01";gene_id "SP01";transcript_id "SP01";exon_number "1"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP01";gene_id "SP01";transcript_id "SP01";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP02";gene_id "SP02";transcript_id "SP02"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP02";gene_id "SP02";transcript_id "SP02";exon_number "1"
preCore_XGR XGR_manual exon 659 756 . + . gene_name "SP02";gene_id "SP02";transcript_id "SP02";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP02";gene_id "SP02";transcript_id "SP02";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP03";gene_id "SP03";transcript_id "SP03"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP03";gene_id "SP03";transcript_id "SP03";exon_number "1"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP03";gene_id "SP03";transcript_id "SP03";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP04";gene_id "SP04";transcript_id "SP04"
preCore_XGR XGR_manual exon 127 397 . + . gene_name "SP04";gene_id "SP04";transcript_id "SP04";exon_number "1"
preCore_XGR XGR_manual exon 659 756 . + . gene_name "SP04";gene_id "SP04";transcript_id "SP04";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP04";gene_id "SP04";transcript_id "SP04";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP05";gene_id "SP05";transcript_id "SP05"
preCore_XGR XGR_manual exon 127 397 . + . gene_name "SP05";gene_id "SP05";transcript_id "SP05";exon_number "1"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP05";gene_id "SP05";transcript_id "SP05";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP06";gene_id "SP06";transcript_id "SP06"
preCore_XGR XGR_manual exon 127 780 . + . gene_name "SP06";gene_id "SP06";transcript_id "SP06";exon_number "1"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP06";gene_id "SP06";transcript_id "SP06";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP07";gene_id "SP07";transcript_id "SP07"
preCore_XGR XGR_manual exon 127 756 . + . gene_name "SP07";gene_id "SP07";transcript_id "SP07";exon_number "1"
preCore_XGR XGR_manual exon 1211 1294 . + . gene_name "SP07";gene_id "SP07";transcript_id "SP07";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP07";gene_id "SP07";transcript_id "SP07";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP08";gene_id "SP08";transcript_id "SP08"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP08";gene_id "SP08";transcript_id "SP08";exon_number "1"
preCore_XGR XGR_manual exon 659 756 . + . gene_name "SP08";gene_id "SP08";transcript_id "SP08";exon_number "2"
preCore_XGR XGR_manual exon 1211 1294 . + . gene_name "SP08";gene_id "SP08";transcript_id "SP08";exon_number "3"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP08";gene_id "SP08";transcript_id "SP08";exon_number "4"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP09";gene_id "SP09";transcript_id "SP09"
preCore_XGR XGR_manual exon 127 756 . + . gene_name "SP09";gene_id "SP09";transcript_id "SP09";exon_number "1"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP09";gene_id "SP09";transcript_id "SP09";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP10";gene_id "SP10";transcript_id "SP10"
preCore_XGR XGR_manual exon 127 397 . + . gene_name "SP10";gene_id "SP10";transcript_id "SP10";exon_number "1"
preCore_XGR XGR_manual exon 659 756 . + . gene_name "SP10";gene_id "SP10";transcript_id "SP10";exon_number "2"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP10";gene_id "SP10";transcript_id "SP10";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP11";gene_id "SP11";transcript_id "SP11"
preCore_XGR XGR_manual exon 127 780 . + . gene_name "SP11";gene_id "SP11";transcript_id "SP11";exon_number "1"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP11";gene_id "SP11";transcript_id "SP11";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP12";gene_id "SP12";transcript_id "SP12"
preCore_XGR XGR_manual exon 127 397 . + . gene_name "SP12";gene_id "SP12";transcript_id "SP12";exon_number "1"
preCore_XGR XGR_manual exon 543 756 . + . gene_name "SP12";gene_id "SP12";transcript_id "SP12";exon_number "2"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP12";gene_id "SP12";transcript_id "SP12";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP13";gene_id "SP13";transcript_id "SP13"
preCore_XGR XGR_manual exon 127 1294 . + . gene_name "SP13";gene_id "SP13";transcript_id "SP13";exon_number "1"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP13";gene_id "SP13";transcript_id "SP13";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP14";gene_id "SP14";transcript_id "SP14"
preCore_XGR XGR_manual exon 127 756 . + . gene_name "SP14";gene_id "SP14";transcript_id "SP14";exon_number "1"
preCore_XGR XGR_manual exon 1211 3421 . + . gene_name "SP14";gene_id "SP14";transcript_id "SP14";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP15";gene_id "SP15";transcript_id "SP15"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP15";gene_id "SP15";transcript_id "SP15";exon_number "1"
preCore_XGR XGR_manual exon 543 756 . + . gene_name "SP15";gene_id "SP15";transcript_id "SP15";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP15";gene_id "SP15";transcript_id "SP15";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP16";gene_id "SP16";transcript_id "SP16"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP16";gene_id "SP16";transcript_id "SP16";exon_number "1"
preCore_XGR XGR_manual exon 659 780 . + . gene_name "SP16";gene_id "SP16";transcript_id "SP16";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP16";gene_id "SP16";transcript_id "SP16";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP17";gene_id "SP17";transcript_id "SP17"
preCore_XGR XGR_manual exon 127 376 . + . gene_name "SP17";gene_id "SP17";transcript_id "SP17";exon_number "1"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP17";gene_id "SP17";transcript_id "SP17";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP18";gene_id "SP18";transcript_id "SP18"
preCore_XGR XGR_manual exon 127 780 . + . gene_name "SP18";gene_id "SP18";transcript_id "SP18";exon_number "1"
preCore_XGR XGR_manual exon 1211 1294 . + . gene_name "SP18";gene_id "SP18";transcript_id "SP18";exon_number "2"
preCore_XGR XGR_manual exon 1980 3421 . + . gene_name "SP18";gene_id "SP18";transcript_id "SP18";exon_number "3"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP19";gene_id "SP19";transcript_id "SP19"
preCore_XGR XGR_manual exon 127 1294 . + . gene_name "SP19";gene_id "SP19";transcript_id "SP19";exon_number "1"
preCore_XGR XGR_manual exon 2584 3421 . + . gene_name "SP19";gene_id "SP19";transcript_id "SP19";exon_number "2"
preCore_XGR XGR_manual transcript 127 3421 . + . gene_name "SP20";gene_id "SP20";transcript_id "SP20"
preCore_XGR XGR_manual exon 127 1294 . + . gene_name "SP20";gene_id "SP20";transcript_id "SP20";exon_number "1"
preCore_XGR XGR_manual exon 1773 3421 . + . gene_name "SP20";gene_id "SP20";transcript_id "SP20";exon_number "2"
preCore_XGR XGR_manual transcript 1466 3421 . + . gene_name "SP21";gene_id "SP21";transcript_id "SP21"
preCore_XGR XGR_manual exon 1466 1947 . + . gene_name "SP21";gene_id "SP21";transcript_id "SP21";exon_number "1"
preCore_XGR XGR_manual exon 2796 3421 . + . gene_name "SP21";gene_id "SP21";transcript_id "SP21";exon_number "2"
preCore_XGR XGR_manual transcript 1466 3421 . + . gene_name "SP22";gene_id "SP22";transcript_id "SP22"
preCore_XGR XGR_manual exon 1466 1947 . + . gene_name "SP22";gene_id "SP22";transcript_id "SP22";exon_number "1"
preCore_XGR XGR_manual exon 2876 3421 . + . gene_name "SP22";gene_id "SP22";transcript_id "SP22";exon_number "2"
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