https://github.com/ctlab/quant3p
Tip revision: be9977925e9e842cc755f14ced72bbee5c5d6d77 authored by Alexey Sergushichev on 02 December 2019, 17:22:45 UTC
fixes for htseq & macs2 upgrades
fixes for htseq & macs2 upgrades
Tip revision: be99779
mm10.slice.gtf
chr5 mm10_refGene stop_codon 140760549 140760551 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene CDS 140760552 140761118 0 - 0 gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene exon 140759944 140761118 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene CDS 140762590 140762640 0 - 0 gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene exon 140762590 140762640 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene CDS 140785397 140785612 0 - 0 gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene exon 140785397 140785612 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene CDS 140829994 140830296 0 - 0 gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene start_codon 140830294 140830296 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene exon 140829994 140830431 0 - . gene_id "14673"; transcript_id "NM_010302";
chr5 mm10_refGene exon 140724127 140724168 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140724374 140724471 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene start_codon 140741284 140741286 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140741284 140741587 0 + 0 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140741065 140741587 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140744017 140744184 0 + 2 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140744017 140744184 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140748143 140748271 0 + 2 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140748143 140748271 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140748615 140748787 0 + 2 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140748615 140748787 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140749155 140749331 0 + 0 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140749155 140749331 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene CDS 140751938 140752492 0 + 0 gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene stop_codon 140752493 140752495 0 + . gene_id "231842"; transcript_id "NM_173405";
chr5 mm10_refGene exon 140751938 140753312 0 + . gene_id "231842"; transcript_id "NM_173405";
chr6 mm10_refGene start_codon 83326254 83326256 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83326254 83326267 0 + 0 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83326039 83326267 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83329867 83330033 0 + 1 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83329867 83330033 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83332454 83332547 0 + 2 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83332454 83332547 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83334076 83334209 0 + 1 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83334076 83334209 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83338281 83338444 0 + 2 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83338281 83338444 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene CDS 83340176 83340250 0 + 0 gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene stop_codon 83340251 83340253 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene exon 83340176 83340949 0 + . gene_id "232157"; transcript_id "NM_145571";
chr6 mm10_refGene start_codon 83349501 83349503 0 + . gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene CDS 83349501 83349554 0 + 0 gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene exon 83349484 83349554 0 + . gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene CDS 83351266 83351389 0 + 0 gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene exon 83351266 83351389 0 + . gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene CDS 83353042 83353130 0 + 2 gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene exon 83353042 83353130 0 + . gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene CDS 83358147 83358209 0 + 0 gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene stop_codon 83358210 83358212 0 + . gene_id "78653"; transcript_id "NM_175277";
chr6 mm10_refGene exon 83358147 83358392 0 + . gene_id "78653"; transcript_id "NM_175277";
chr14 mm10_refGene stop_codon 25888516 25888518 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene CDS 25888519 25888526 0 - 2 gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene exon 25888403 25888526 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene CDS 25888896 25889019 0 - 0 gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene exon 25888896 25889019 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene CDS 25890761 25890855 0 - 2 gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene exon 25890761 25890855 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene CDS 25902786 25902882 0 - 0 gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene start_codon 25902880 25902882 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene exon 25902786 25902893 0 - . gene_id "211623"; transcript_id "NM_207229";
chr14 mm10_refGene exon 25923298 25923933 0 - . gene_id "66039"; transcript_id "NM_025311";
chr14 mm10_refGene exon 25923298 25923933 0 - . gene_id "66039"; transcript_id "NM_026679";
chr14 mm10_refGene stop_codon 25888516 25888518 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene CDS 25888519 25888526 0 - 2 gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene exon 25887934 25888526 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene CDS 25888896 25889019 0 - 0 gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene exon 25888896 25889019 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene CDS 25890761 25890855 0 - 2 gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene exon 25890761 25890855 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene CDS 25902786 25902882 0 - 0 gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene start_codon 25902880 25902882 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene exon 25902786 25902971 0 - . gene_id "100039246"; transcript_id "NM_001270503";
chr14 mm10_refGene exon 25842155 25842295 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene start_codon 25868872 25868874 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25868872 25868926 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25868864 25868926 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25870069 25870181 0 + 2 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25870069 25870181 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25872512 25872898 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25872512 25872898 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25873944 25874031 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25873944 25874031 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25874210 25874304 0 + 2 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25874210 25874304 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25874671 25874784 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25874671 25874784 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25876661 25876751 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25876661 25876751 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25877109 25877188 0 + 2 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25877109 25877188 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25877351 25877407 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25877351 25877407 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25879084 25879177 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25879084 25879177 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25882916 25883011 0 + 2 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25882916 25883011 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25883927 25883985 0 + 2 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25883927 25883985 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25884142 25884264 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25884142 25884264 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene CDS 25886011 25886067 0 + 0 gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene stop_codon 25886068 25886070 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene exon 25886011 25886804 0 + . gene_id "11744"; transcript_id "NM_013469";
chr14 mm10_refGene stop_codon 26028286 26028288 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene CDS 26028289 26028296 0 - 2 gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene exon 26028173 26028296 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene CDS 26028666 26028789 0 - 0 gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene exon 26028666 26028789 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene CDS 26030529 26030623 0 - 2 gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene exon 26030529 26030623 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene CDS 26042552 26042648 0 - 0 gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene start_codon 26042646 26042648 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene exon 26042552 26042659 0 - . gene_id "NM_207229_dup1"; transcript_id "NM_207229_dup1";
chr14 mm10_refGene stop_codon 26028286 26028288 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene CDS 26028289 26028296 0 - 2 gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene exon 26027704 26028296 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene CDS 26028666 26028789 0 - 0 gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene exon 26028666 26028789 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene CDS 26030529 26030623 0 - 2 gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene exon 26030529 26030623 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene CDS 26042552 26042648 0 - 0 gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene start_codon 26042646 26042648 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene exon 26042552 26042737 0 - . gene_id "NM_001270503_dup1"; transcript_id "NM_001270503_dup1";
chr14 mm10_refGene stop_codon 26167900 26167902 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene CDS 26167903 26167910 0 - 2 gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene exon 26167787 26167910 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene CDS 26168280 26168403 0 - 0 gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene exon 26168280 26168403 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene CDS 26170143 26170237 0 - 2 gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene exon 26170143 26170237 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene CDS 26182166 26182262 0 - 0 gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene start_codon 26182260 26182262 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene exon 26182166 26182273 0 - . gene_id "NM_207229_dup2"; transcript_id "NM_207229_dup2";
chr14 mm10_refGene stop_codon 26167900 26167902 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene CDS 26167903 26167910 0 - 2 gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene exon 26167318 26167910 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene CDS 26168280 26168403 0 - 0 gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene exon 26168280 26168403 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene CDS 26170143 26170237 0 - 2 gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene exon 26170143 26170237 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene CDS 26182166 26182262 0 - 0 gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene start_codon 26182260 26182262 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
chr14 mm10_refGene exon 26182166 26182351 0 - . gene_id "NM_001270503_dup2"; transcript_id "NM_001270503_dup2";
