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updated to last revision
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@kimrutherford @github-actions
kimrutherford authored and github-actions[bot] committed Dec 17, 2023
1 parent 5c8ca8b commit cfb7565
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Showing 10 changed files with 9,232 additions and 9,216 deletions.
10,022 changes: 5,014 additions & 5,008 deletions data/alleles.tsv
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13 changes: 7 additions & 6 deletions data/chromosome1.contig
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Expand Up @@ -38556,9 +38556,9 @@ FT 3'UTR complement(2391946..2392369)
FT /systematic_id="SPAC22H10.11c"
FT /db_xref="PMID:21511999"
FT CDS complement(2392370..2394259)
FT /colour=7
FT /colour=2
FT /product="transcriptional corepressor for ribosomal
FT proteins via TOR signaling pathway Crf1 (predicted)"
FT proteins via TOR signaling pathway Ifh1"
FT /systematic_id="SPAC22H10.11c"
FT /controlled_curation="term=orthologous to S. cerevisiae
FT YDR223W and YLR223C; date=20080922"
Expand All @@ -38571,7 +38571,8 @@ FT in fungi only; date=20081110"
FT /controlled_curation="term=species distribution, conserved
FT in eukaryotes; date=20090202"
FT /db_xref="SPD:26/26E02"
FT /primary_name="crf1"
FT /primary_name="ifh1"
FT /synonym="crf1"
FT lncRNA 2393065..2393271
FT /db_xref="PMID:29914874"
FT /systematic_id="SPNCRNA.3075"
Expand Down Expand Up @@ -71299,10 +71300,10 @@ FT 3'UTR complement(4431869..4432303)
FT /db_xref="EMBL:SPC06207"
FT /systematic_id="SPAC16.05c"
FT CDS complement(4432304..4433632)
FT /colour=7
FT /colour=2
FT /primary_name="sfp1"
FT /product="DNA-binding transcription factor Sfp1
FT (predicted)"
FT /product="DNA-binding transcription factor for ribosome
FT biogenesis Sfp1"
FT /systematic_id="SPAC16.05c"
FT /db_xref="SPD:20/20E11"
FT /controlled_curation="term=zinc finger protein;
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10 changes: 6 additions & 4 deletions data/chromosome2.contig
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Expand Up @@ -1512,12 +1512,13 @@ FT condition=FYECO:0000126; during=GO:0072690;
FT score=29.602100; db_xref=PMID:30566651"
FT CDS 148750..150429
FT /colour=7
FT /product="plasma membrane uricil/uridine transmembrane
FT transporter transmembrane transporter family (predicted)"
FT /product="plasma membrane thiamine/nicotinamide riboside
FT transmembrane transporter transmembrane transporter
FT family, Thi7"
FT /db_xref="SPD:35/35B06"
FT /systematic_id="SPBC1683.05"
FT /controlled_curation="term=orthologous to S. cerevisiae
FT YBR021W and YIR028W and YBL042C; date=19700101"
FT YOR192C and YOR071C and YLR237W; date=19700101"
FT /controlled_curation="term=complementation, does not
FT functionally complement S. cerevisiae thi7; evidence=NAS;
FT date=20100127"
Expand All @@ -1527,6 +1528,7 @@ FT /controlled_curation="term=species distribution, conserved
FT in eukaryotes; date=20100820"
FT /controlled_curation="term=species distribution, conserved
FT in bacteria; date=20100820"
FT /primary_name="thi7"
FT lncRNA complement(149489..149833)
FT /db_xref="PMID:29914874"
FT /systematic_id="SPNCRNA.4590"
Expand Down Expand Up @@ -70802,7 +70804,7 @@ FT CDS 4346652..4348988
FT /EC_number="2.4.1.109"
FT /colour=2
FT /primary_name="ogm4"
FT /product="ER membrane protein O-mannosyltransferase Ogm4"
FT /product="ER membrane O-mannosyltransferase Ogm4"
FT /synonym="oma4"
FT /db_xref="SPD:46/46G12"
FT /systematic_id="SPBC16C6.09"
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16 changes: 8 additions & 8 deletions results/allele_auto_fix.tsv
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@@ -1,13 +1,13 @@
systematic_id allele_id allele_name allele_description allele_type change_description_to change_name_to change_type_to auto_fix_comment sequence_error solution_index allele_parts rules_applied reference
SPAC140.02 SPAC140.02:allele-3 gar2::ura4+ gar2::ura4+ disruption gar2::ura4 syntax_error gar2::ura4+ disruption:usual PMID:7596817,PMID:9211982
SPAC18G6.02c SPAC18G6.02c:allele-15 chp1-alpha-mut1 KKRKK71NEHG amino_acid_mutation amino_acid_deletion_and_mutation type_error KKRKK71NEHG amino_acid_deletion_and_mutation:multiple_aa PMID:22727667
SPAC23C4.19 SPAC23C4.19:allele-24 spt5-CTD-T1E(7) 801-990,S800SGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGS amino_acid_insertion_and_mutation amino_acid_insertion_and_deletion type_error 801-990|S800SGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGS partial_amino_acid_deletion:multiple_aa|amino_acid_insertion:standard PMID:32366382
SPAC56E4.04c SPAC56E4.04c:allele-6 cut6-1 L1910S amino_acid_mutation L1877S old_coords_fix, revision 8148: complement(join(1246095..1252807,1253430..1253559)) L1910 L1910S amino_acid_mutation:single_aa PMID:37792890
SPAC977.10 SPAC977.10:allele-97 nhe1-REL6 EIEKSIYE390QSSGNSHIKE amino_acid_mutation amino_acid_insertion_and_mutation type_error EIEKSIYE390QSSGNSHIKE amino_acid_insertion_and_mutation:multiple_aa PMID:30996236
SPAC140.02 SPAC140.02:allele-9 gar2::ura4+ gar2::ura4+ disruption gar2::ura4 syntax_error gar2::ura4+ disruption:usual PMID:7596817,PMID:9211982
SPAC18G6.02c SPAC18G6.02c:allele-11 chp1-alpha-mut1 KKRKK71NEHG amino_acid_mutation amino_acid_deletion_and_mutation type_error KKRKK71NEHG amino_acid_deletion_and_mutation:multiple_aa PMID:22727667
SPAC23C4.19 SPAC23C4.19:allele-20 spt5-CTD-T1E(7) 801-990,S800SGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGS amino_acid_insertion_and_mutation amino_acid_insertion_and_deletion type_error 801-990|S800SGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGSGSKEPAWNSGS partial_amino_acid_deletion:multiple_aa|amino_acid_insertion:standard PMID:32366382
SPAC56E4.04c SPAC56E4.04c:allele-7 cut6-1 L1910S amino_acid_mutation L1877S old_coords_fix, revision 8148: complement(join(1246095..1252807,1253430..1253559)) L1910 L1910S amino_acid_mutation:single_aa PMID:37792890
SPAC977.10 SPAC977.10:allele-44 nhe1-REL6 EIEKSIYE390QSSGNSHIKE amino_acid_mutation amino_acid_insertion_and_mutation type_error EIEKSIYE390QSSGNSHIKE amino_acid_insertion_and_mutation:multiple_aa PMID:30996236
SPBC215.05 SPBC215.05:allele-3 gpd1-G4BS TTACGTCA(-324)CGGAAGACTCTCCTCCG nucleotide_mutation nucleotide_insertion_and_mutation type_error TTACGTCA(-324)CGGAAGACTCTCCTCCG nucleotide_insertion_and_mutation:multiple_nt PMID:25122751
SPBC28F2.12 SPBC28F2.12:allele-22 rpb1-CTD-S2A(r1-r12)delta(r13-r29) CTD-S2A(r1-r12)delta(r13-r29) amino_acid_deletion_and_mutation CTD-S2A(r1-r12),delta(r13-r29) syntax_error CTD-S2A(r1-r12)delta(r13-r29) amino_acid_deletion_and_mutation:CTD PMID:22144909
SPBC28F2.12 SPBC28F2.12:allele-5 rpb1-CTD-S2A(r5-r29)S7A(r5-r29) CTD-S2A(r5-r29)S7A(r5-r29) amino_acid_mutation CTD-S2A(r5-r29),S7A(r5-r29) syntax_error CTD-S2A(r5-r29)S7A(r5-r29) amino_acid_mutation:CTD PMID:22771993
SPBC28F2.12 SPBC28F2.12:allele-33 rpb1-CTD-S2A(r1-r12)delta(r13-r29) CTD-S2A(r1-r12)delta(r13-r29) amino_acid_deletion_and_mutation CTD-S2A(r1-r12),delta(r13-r29) syntax_error CTD-S2A(r1-r12)delta(r13-r29) amino_acid_deletion_and_mutation:CTD PMID:22144909
SPBC28F2.12 SPBC28F2.12:allele-19 rpb1-CTD-S2A(r5-r29)S7A(r5-r29) CTD-S2A(r5-r29)S7A(r5-r29) amino_acid_mutation CTD-S2A(r5-r29),S7A(r5-r29) syntax_error CTD-S2A(r5-r29)S7A(r5-r29) amino_acid_mutation:CTD PMID:22771993
SPBC3H7.13 SPBC3H7.13:allele-2 csc1::ura4+ csc1::ura4+ disruption csc1::ura4 syntax_error csc1::ura4+ disruption:usual PMID:23874188
SPBC428.08c SPBC428.08c:allele-22 clr4-alpha-mut KRRKR58NEHG amino_acid_mutation amino_acid_deletion_and_mutation type_error KRRKR58NEHG amino_acid_deletion_and_mutation:multiple_aa PMID:22727667
SPBC428.08c SPBC428.08c:allele-7 clr4-alpha-mut KRRKR58NEHG amino_acid_mutation amino_acid_deletion_and_mutation type_error KRRKR58NEHG amino_acid_deletion_and_mutation:multiple_aa PMID:22727667
SPCC757.07c SPCC757.07c:allele-3 ctt1-G4BS ATGACGT(-428)CGGAAGACTCTCCTCCG nucleotide_mutation nucleotide_insertion_and_mutation type_error ATGACGT(-428)CGGAAGACTCTCCTCCG nucleotide_insertion_and_mutation:multiple_nt PMID:25122751
SPNCRNA.1712 SPNCRNA.1712:allele-2 nc-pho1-dual-PAS-mut ATTTTT-342-CTCGAG,AATAAA-568-GGCGGG nucleotide_mutation ATTTTT342CTCGAG,AATAAA568GGCGGG syntax_error ATTTTT-342-CTCGAG|AATAAA-568-GGCGGG nucleotide_mutation:multiple_nt|nucleotide_mutation:multiple_nt PMID:30355770,PMID:36882296
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