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/dports/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/sample_data/supertranscripts_example/
H A Dsupertranscripts.gtf1 Calx Trinity_gene exon 631 864 . + . gene_id "Calx"; transcript_id "Calx_i7"
2 Calx Trinity_gene exon 1803 4077 . + . gene_id "Calx"; transcript_id "Calx_i7"
3 Calx Trinity_gene exon 4078 4092 . + . gene_id "Calx"; transcript_id "Calx_i7"
4 Calx Trinity_gene exon 4093 4831 . + . gene_id "Calx"; transcript_id "Calx_i7"
5 Calx Trinity_gene exon 4832 4870 . + . gene_id "Calx"; transcript_id "Calx_i7"
6 Calx Trinity_gene exon 4871 5506 . + . gene_id "Calx"; transcript_id "Calx_i7"
7 Calx Trinity_gene exon 5537 5551 . + . gene_id "Calx"; transcript_id "Calx_i7"
8 Calx Trinity_gene exon 5552 6706 . + . gene_id "Calx"; transcript_id "Calx_i7"
9 Calx Trinity_gene exon 6707 7292 . + . gene_id "Calx"; transcript_id "Calx_i7"
14 Calx Trinity_gene exon 865 930 . + . gene_id "Calx"; transcript_id "Calx_i6"
[all …]
/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/
H A Dmagicblast_unit_test.cpp198 SExon exon; in BOOST_AUTO_TEST_CASE() local
225 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
250 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
275 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
300 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
396 SExon exon; in BOOST_AUTO_TEST_CASE() local
414 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
429 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
444 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
459 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/
H A Dmagicblast_unit_test.cpp198 SExon exon; in BOOST_AUTO_TEST_CASE() local
225 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
250 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
275 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
300 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
396 SExon exon; in BOOST_AUTO_TEST_CASE() local
414 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
429 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
444 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
459 exon.donor = ""; in BOOST_AUTO_TEST_CASE()
[all …]
/dports/biology/p5-transdecoder/TransDecoder-TransDecoder-v5.4.0/sample_data/stringtie_example/
H A Dstringtie_merged.gtf4 chrX StringTie exon 322514 323718 1000 . . gene_id "MSTRG.1"; transcript_id "MSTRG.1.1"; exon_numbe…
6 chrX StringTie exon 304750 305197 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
7 chrX StringTie exon 307360 307512 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
8 chrX StringTie exon 307732 307880 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
9 chrX StringTie exon 311419 311627 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
10 chrX StringTie exon 312766 312924 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
11 chrX StringTie exon 314150 314217 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
12 chrX StringTie exon 314890 315020 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
13 chrX StringTie exon 315229 315299 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
14 chrX StringTie exon 316914 317051 1000 - . gene_id "MSTRG.2"; transcript_id "MSTRG.2.1"; exon_numbe…
[all …]
/dports/biology/emboss/EMBOSS-6.6.0/ajax/ensembl/
H A Densexon.c1372 return (exon) ? exon->Adaptor : NULL; in ensExonGetAdaptor()
1393 return (exon) ? exon->Constitutive : ajFalse; in ensExonGetConstitutive()
1415 return (exon) ? exon->Current : ajFalse; in ensExonGetCurrent()
1436 return (exon) ? exon->DateCreation : NULL; in ensExonGetDateCreation()
1457 return (exon) ? exon->DateModification : NULL; in ensExonGetDateModification()
1481 return (exon) ? exon->Feature : NULL; in ensExonGetFeature()
1502 return (exon) ? exon->Identifier : 0U; in ensExonGetIdentifier()
1523 return (exon) ? exon->PhaseEnd : 0; in ensExonGetPhaseEnd()
1567 return (exon) ? exon->PhaseStart : 0; in ensExonGetPhaseStart()
1609 return (exon) ? exon->Version : 0U; in ensExonGetVersion()
[all …]
H A Densexon.h151 EnsPExon ensExonNewRef(EnsPExon exon);
157 AjBool ensExonGetConstitutive(const EnsPExon exon);
159 AjBool ensExonGetCurrent(const EnsPExon exon);
161 AjPStr ensExonGetDateCreation(const EnsPExon exon);
167 ajuint ensExonGetIdentifier(const EnsPExon exon);
169 ajint ensExonGetPhaseEnd(const EnsPExon exon);
171 ajint ensExonGetPhaseStart(const EnsPExon exon);
175 ajuint ensExonGetVersion(const EnsPExon exon);
203 ajint ensExonCalculateFrame(const EnsPExon exon);
231 EnsPExon ensExonTransform(EnsPExon exon,
[all …]
/dports/biology/py-crossmap/CrossMap-0.5.4/test/
H A Dtest08_hg19.gtf2 chr1 hg19_refGene exon 66081691 66081907 0.000000 + . gene_id "NM_002303"; transcript_id "NM_002303…
4 chr1 hg19_refGene exon 172017752 172017890 0.000000 + . gene_id "NM_001136127"; transcript_id "NM_0…
9 chr1 hg19_refGene exon 3417741 3417872 0.000000 - . gene_id "NM_001409"; transcript_id "NM_001409";
10 chr1 hg19_refGene exon 10190773 10190871 0.000000 + . gene_id "NM_006048"; transcript_id "NM_006048…
11 chr1 hg19_refGene exon 11805860 11805894 0.000000 + . gene_id "NM_020350"; transcript_id "NM_020350…
20 chr1 hg19_refGene exon 68591041 68592018 0.000000 - . gene_id "NM_024911"; transcript_id "NM_024911…
21 chr1 hg19_refGene exon 68619200 68619336 0.000000 - . gene_id "NM_024911"; transcript_id "NM_024911…
24 chr1 hg19_refGene exon 94476356 94476485 0.000000 - . gene_id "NM_000350"; transcript_id "NM_000350…
25 chr1 hg19_refGene exon 94982608 94984219 0.000000 + . gene_id "NM_002858"; transcript_id "NM_002858…
50 chr1 hg19_refGene exon 2318858 2318968 0.000000 - . gene_id "NM_024848"; transcript_id "NM_024848";
[all …]
/dports/biology/p5-Bio-GFF3/Bio-GFF3-2.0/t/data/
H A Dmm9_sample_ensembl.gff3106 12 Ensembl exon 57796848 57796851 . + 0 Name=;Parent=CCDS25924.1
107 12 Ensembl exon 57797561 57798187 . + 1 Name=;Parent=CCDS25924.1
108 12 Ensembl exon 57800999 57801141 . + 1 Name=;Parent=CCDS25924.1
109 12 Ensembl exon 57810640 57810894 . + 0 Name=;Parent=CCDS25924.1
113 12 Ensembl exon 58297860 58297926 . - 1 Name=;Parent=CCDS25925.1
114 12 Ensembl exon 58029252 58029300 . - 2 Name=;Parent=CCDS25925.1
115 12 Ensembl exon 57959014 57959097 . - 2 Name=;Parent=CCDS25925.1
116 12 Ensembl exon 57876313 57876379 . - 0 Name=;Parent=CCDS25925.1
117 12 Ensembl exon 57871140 57871199 . - 0 Name=;Parent=CCDS25925.1
118 12 Ensembl exon 57867005 57867112 . - 0 Name=;Parent=CCDS25925.1
[all …]
H A Dtomato_chr4_head.gff35 chr04 EuGene exon 12512 12955 . + 0 ID=exon:chr04.1.1;Parent=mRNA:chr04.1;Ontology_term=SO:0000147
10 chr04 EuGene exon 15510 15947 . + 0 ID=exon:chr04.2.1;Parent=mRNA:chr04.2;Ontology_term=SO:0000200
11 chr04 EuGene exon 18837 21038 . + 0 ID=exon:chr04.2.2;Parent=mRNA:chr04.2;Ontology_term=SO:0000004
12 chr04 EuGene exon 21529 21687 . + 0 ID=exon:chr04.2.3;Parent=mRNA:chr04.2;Ontology_term=SO:0000202
19 chr04 EuGene exon 31909 32480 . - 2 ID=exon:chr04.3.2;Parent=mRNA:chr04.3;Ontology_term=SO:0000202
20 chr04 EuGene exon 32566 33004 . - 0 ID=exon:chr04.3.1;Parent=mRNA:chr04.3;Ontology_term=SO:0000200
26 chr04 EuGene exon 87944 89482 . + 0 ID=exon:chr04.4.1;Parent=mRNA:chr04.4;Ontology_term=SO:0000147
31 chr04 EuGene exon 90341 90490 . - 0 ID=exon:chr04.5.8;Parent=mRNA:chr04.5;Ontology_term=SO:0000202
32 chr04 EuGene exon 91259 91391 . - 1 ID=exon:chr04.5.7;Parent=mRNA:chr04.5;Ontology_term=SO:0000004
33 chr04 EuGene exon 91984 92287 . - 2 ID=exon:chr04.5.6;Parent=mRNA:chr04.5;Ontology_term=SO:0000004
[all …]
H A Dtomato_test.gff35 SL2.40ch01 ITAG_eugene exon 80999140 80999496 . + . ID=exon:Solyc01g098840.2.1.1;Parent=mRNA:Solyc0…
9 SL2.40ch01 ITAG_eugene exon 81000283 81000520 . + 0 ID=exon:Solyc01g098840.2.1.2;Parent=mRNA:Solyc0…
12 SL2.40ch01 ITAG_eugene exon 81000613 81000866 . + 2 ID=exon:Solyc01g098840.2.1.3;Parent=mRNA:Solyc0…
15 SL2.40ch01 ITAG_eugene exon 81002584 81002997 . + 1 ID=exon:Solyc01g098840.2.1.4;Parent=mRNA:Solyc0…
18 SL2.40ch01 ITAG_eugene exon 81003924 81004317 . + 2 ID=exon:Solyc01g098840.2.1.5;Parent=mRNA:Solyc0…
24 SL2.40ch01 ITAG_eugene exon 81004479 81004659 . - . ID=exon:Solyc01g098850.2.1.4;Parent=mRNA:Solyc0…
28 SL2.40ch01 ITAG_eugene exon 81004761 81005119 . - 2 ID=exon:Solyc01g098850.2.1.3;Parent=mRNA:Solyc0…
31 SL2.40ch01 ITAG_eugene exon 81005213 81005589 . - 1 ID=exon:Solyc01g098850.2.1.2;Parent=mRNA:Solyc0…
34 SL2.40ch01 ITAG_eugene exon 81005961 81006268 . - 0 ID=exon:Solyc01g098850.2.1.1;Parent=mRNA:Solyc0…
40 SL2.40ch01 ITAG_eugene exon 81006669 81006873 . + . ID=exon:Solyc01g098860.2.1.1;Parent=mRNA:Solyc0…
[all …]
/dports/biology/mummer/mummer-4.0.0beta2-2-g277dac5/docs/web/examples/data/
H A DD_melanogaster_2Rslice.cds1 D_melanogaster_2Rslice Dpseudo initial-exon 4473 4605 . - . 2R_CG14748.1
2 D_melanogaster_2Rslice Dpseudo internal-exon 2533 3735 . - . 2R_CG14748.1
3 D_melanogaster_2Rslice Dpseudo internal-exon 1823 2164 . - . 2R_CG14748.1
4 D_melanogaster_2Rslice Dpseudo internal-exon 1416 1733 . - . 2R_CG14748.1
5 D_melanogaster_2Rslice Dpseudo internal-exon 1205 1352 . - . 2R_CG14748.1
6 D_melanogaster_2Rslice Dpseudo internal-exon 937 1142 . - . 2R_CG14748.1
7 D_melanogaster_2Rslice Dpseudo internal-exon 425 608 . - . 2R_CG14748.1
8 D_melanogaster_2Rslice Dpseudo last-exon 23 347 . - . 2R_CG14748.1
9 D_melanogaster_2Rslice Dpseudo initial-exon 8532 8638 . - . 2R_CG14747.1
11 D_melanogaster_2Rslice Dpseudo last-exon 7176 7258 . - . 2R_CG14747.1
[all …]
H A DD_melanogaster_2Rslice.utr1 D_melanogaster_2Rslice Dpseudo initial-exon 4473 4834 . - . 2R_CG14748.1
2 D_melanogaster_2Rslice Dpseudo internal-exon 2533 3735 . - . 2R_CG14748.1
3 D_melanogaster_2Rslice Dpseudo internal-exon 1823 2164 . - . 2R_CG14748.1
4 D_melanogaster_2Rslice Dpseudo internal-exon 1416 1733 . - . 2R_CG14748.1
5 D_melanogaster_2Rslice Dpseudo internal-exon 1205 1352 . - . 2R_CG14748.1
6 D_melanogaster_2Rslice Dpseudo internal-exon 937 1142 . - . 2R_CG14748.1
7 D_melanogaster_2Rslice Dpseudo internal-exon 425 608 . - . 2R_CG14748.1
8 D_melanogaster_2Rslice Dpseudo last-exon 1 347 . - . 2R_CG14748.1
9 D_melanogaster_2Rslice Dpseudo initial-exon 8532 8638 . - . 2R_CG14747.1
11 D_melanogaster_2Rslice Dpseudo last-exon 7176 7258 . - . 2R_CG14747.1
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/gff3writer_test_cases/
H A Drw-1080.entry.gff311 NM_002020.5 RefSeq exon 1 113 . + . ID=id-FLT4;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:3767,M…
12 NM_002020.5 RefSeq exon 114 210 . + . ID=id-FLT4-2;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:37…
13 NM_002020.5 RefSeq exon 211 455 . + . ID=id-FLT4-3;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:37…
14 NM_002020.5 RefSeq exon 456 568 . + . ID=id-FLT4-4;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:37…
15 NM_002020.5 RefSeq exon 569 731 . + . ID=id-FLT4-5;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:37…
16 NM_002020.5 RefSeq exon 732 871 . + . ID=id-FLT4-6;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:37…
17 NM_002020.5 RefSeq exon 872 1040 . + . ID=id-FLT4-7;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:3…
18 NM_002020.5 RefSeq exon 1041 1158 . + . ID=id-FLT4-8;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:…
19 NM_002020.5 RefSeq exon 1159 1313 . + . ID=id-FLT4-9;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC:…
20 NM_002020.5 RefSeq exon 1314 1476 . + . ID=id-FLT4-10;Parent=gene-FLT4;Dbxref=GeneID:2324,HGNC:HGNC…
[all …]
H A Dspliced-seg.annot.asn34 donor-after-exon {
49 donor-after-exon {
64 donor-after-exon {
79 donor-after-exon {
94 donor-after-exon {
109 donor-after-exon {
126 donor-after-exon {
186 donor-after-exon {
201 donor-after-exon {
216 donor-after-exon {
[all …]
/dports/biology/gffread/gffread-0.12.7/examples/output/
H A Dann_simple.gff5 NT_187562.1 BestRefSeq exon 411 495 . + . Parent=rna157470
6 NT_187562.1 BestRefSeq exon 1995 2051 . + . Parent=rna157470
7 NT_187562.1 BestRefSeq exon 2602 2726 . + . Parent=rna157470
8 NT_187562.1 BestRefSeq exon 9665 9753 . + . Parent=rna157470
9 NT_187562.1 BestRefSeq exon 12115 12164 . + . Parent=rna157470
10 NT_187562.1 BestRefSeq exon 12577 12744 . + . Parent=rna157470
11 NT_187562.1 BestRefSeq exon 14174 14326 . + . Parent=rna157470
12 NT_187562.1 BestRefSeq exon 14664 14864 . + . Parent=rna157470
13 NT_187562.1 BestRefSeq exon 16634 16788 . + . Parent=rna157470
14 NT_187562.1 BestRefSeq exon 17438 17606 . + . Parent=rna157470
[all …]
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/apps/ngs_roi/example/
H A Ddmel.gtf1 2L dm3_flyBaseGene exon 8384467 8384895 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
2 2L dm3_flyBaseGene exon 8384997 8385097 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
5 2L dm3_flyBaseGene exon 8386217 8386385 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
7 2L dm3_flyBaseGene exon 8386484 8387378 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
9 2L dm3_flyBaseGene exon 8387659 8387831 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
12 2L dm3_flyBaseGene exon 8387891 8388803 0.000000 + . gene_id "CG13384-RD"; transcript_id "CG13384-R…
13 2L dm3_flyBaseGene exon 8384467 8384540 0.000000 + . gene_id "CG13384-RC"; transcript_id "CG13384-R…
16 2L dm3_flyBaseGene exon 8384700 8384895 0.000000 + . gene_id "CG13384-RC"; transcript_id "CG13384-R…
18 2L dm3_flyBaseGene exon 8386217 8386385 0.000000 + . gene_id "CG13384-RC"; transcript_id "CG13384-R…
20 2L dm3_flyBaseGene exon 8386487 8387378 0.000000 + . gene_id "CG13384-RC"; transcript_id "CG13384-R…
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/unit_test/
H A Dunit_test_gene_model.cpp541 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
547 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
581 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
605 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
612 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
658 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
684 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
693 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
867 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
893 exons.push_back(exon); in BOOST_AUTO_TEST_CASE()
[all …]
/dports/biology/subread/subread-2.0.2-source/test/featureCounts/data/
H A Dtest-minimum.GTF1 chr3 FCTEST exon 100 10000 . + 0 gene_id "simu_gene1"; transcript_id "TR:simu_gene1"
2 chr3 FCTEST exon 20000 30000 . + 0 gene_id "simu_gene1"; transcript_id "TR:simu_gene1"
3 chr3 FCTEST exon 40000 89000 . + 0 gene_id "simu_gene1"; transcript_id "TR:simu_gene1"
4 chr3 FCTEST exon 100010 101000 . + 0 gene_id "simu_gene2"; transcript_id "TR:simu_gene2"
5 chr3 FCTEST exon 102000 103000 . + 0 gene_id "simu_gene2"; transcript_id "TR:simu_gene2"
6 chr3 FCTEST exon 104000 129000 . + 0 gene_id "simu_gene2"; transcript_id "TR:simu_gene2"
7 chr3 FCTEST exon 102000 131000 . + 0 gene_id "simu_gene2"; transcript_id "TR:simu_gene2"
8 chr3 FCTEST exon 500010 501000 . - 0 gene_id "simu_gene3"; transcript_id "TR:simu_gene3"
9 chr3 FCTEST exon 502000 503000 . - 0 gene_id "simu_gene3"; transcript_id "TR:simu_gene3"
10 chr3 FCTEST exon 504000 529000 . - 0 gene_id "simu_gene3"; transcript_id "TR:simu_gene3"
[all …]
H A Dtest-chralias.GTF1 chr3 SAF exon 100 10000 . + 0 gene_id "simu_gene1"; transcript_id "TRN_simu_gene1"; exon_id "EXON_s…
2 chr3 SAF exon 20000 30000 . + 0 gene_id "simu_gene1"; transcript_id "TRN_simu_gene1"; exon_id "EXON…
3 chr3 SAF exon 40000 89000 . + 0 gene_id "simu_gene1"; transcript_id "TRN_simu_gene1"; exon_id "EXON…
4 chr3 SAF exon 100010 101000 . + 0 gene_id "simu_gene2"; transcript_id "TRN_simu_gene2"; exon_id "EX…
5 chr3 SAF exon 102000 103000 . + 0 gene_id "simu_gene2"; transcript_id "TRN_simu_gene2"; exon_id "EX…
6 chr3 SAF exon 104000 129000 . + 0 gene_id "simu_gene2"; transcript_id "TRN_simu_gene2"; exon_id "EX…
7 chr3 SAF exon 102000 131000 . + 0 gene_id "simu_gene2"; transcript_id "TRN_simu_gene2"; exon_id "EX…
8 chr3 SAF exon 500010 501000 . - 0 gene_id "simu_gene3"; transcript_id "TRN_simu_gene3"; exon_id "EX…
9 chr3 SAF exon 502000 503000 . - 0 gene_id "simu_gene3"; transcript_id "TRN_simu_gene3"; exon_id "EX…
10 chr3 SAF exon 504000 529000 . - 0 gene_id "simu_gene3"; transcript_id "TRN_simu_gene3"; exon_id "EX…
[all …]
/dports/biology/p5-BioPerl/BioPerl-1.7.7/t/Tools/
H A DSim4.t22 my $exon = 1;
25 is $exons[$exon]->strand(), -1;
26 is $exons[$exon]->start(), 1048;
27 is $exons[$exon]->end(), 1117;
28 is $exons[$exon]->score, 93;
40 $exon = 1;
43 is $exons[$exon]->strand(), 1;
45 is $exons[$exon]->end(), 1500;
46 is $exons[$exon]->score, 99;
54 is $exons[$exon]->strand(), 1;
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/unit_test/gtfreader_test_cases/
H A Dgene-mrna-exon-cds.gtf3 Chr1 TAIR10 exon 3631 3913 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
5 Chr1 TAIR10 exon 3996 4276 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
7 Chr1 TAIR10 exon 4486 4605 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
9 Chr1 TAIR10 exon 4706 5095 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
11 Chr1 TAIR10 exon 5174 5326 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
13 Chr1 TAIR10 exon 5439 5899 . + . gene_id "AT1G01010"; transcript_id "AT1G01010.1"
18 Chr1 TAIR10 exon 8571 8737 . - . gene_id "AT1G01020"; transcript_id "AT1G01020.1"
20 Chr1 TAIR10 exon 8417 8464 . - . gene_id "AT1G01020"; transcript_id "AT1G01020.1"
22 Chr1 TAIR10 exon 8236 8325 . - . gene_id "AT1G01020"; transcript_id "AT1G01020.1"
24 Chr1 TAIR10 exon 7942 7987 . - . gene_id "AT1G01020"; transcript_id "AT1G01020.1"
[all …]
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/writers/unit_test/pslwriter_test_cases/
H A Drw-255-1k.asn1117 donor-after-exon {
142 donor-after-exon {
334 donor-after-exon {
359 donor-after-exon {
384 donor-after-exon {
409 donor-after-exon {
434 donor-after-exon {
459 donor-after-exon {
484 donor-after-exon {
509 donor-after-exon {
[all …]
H A Drw-255-100.asn1117 donor-after-exon {
142 donor-after-exon {
167 donor-after-exon {
192 donor-after-exon {
217 donor-after-exon {
242 donor-after-exon {
267 donor-after-exon {
292 donor-after-exon {
317 donor-after-exon {
342 donor-after-exon {
[all …]
/dports/biology/seqan-apps/seqan-seqan-v2.4.0/tests/gff_io/
H A Dexample_with_errors.gff7 gtg123 . exon
8 atg123 . exon
9 btg123 . exon 1050
10 ctg123 . exon 1050
11 dtg123 . exon 1050 1500
12 etg123 . exon 1050 1500
13 ftg123 . exon 1050 1500 .
14 gtg123 . exon 1050 1500 .
15 htg123 . exon 1050 1500 . +
16 itg123 . exon 1050 1500 . +
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/dports/biology/wise/wise2.4.1/src/models/
H A Dest_evidence.dy25 EstExon ** exon !list
67 EstExon * exon;
91 if( sscanf(buffer,"exon %d %d %d",&exon->start,&exon->end,&exon->intron_3_score) < 2 ) {
95 exon->start--;
96 exon->end--;
100 sscanf(buffer,"cds %d %d %d",&exon->start,&exon->end,&exon->phase);
101 exon->start--;
102 exon->end--;
103 if( exon->phase > 2 || exon->phase < 0 ) {
282 if( est->exon[i]->start <= jposition && jposition <= est->exon[i]->end ) {
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