GFF ingestion: Difference between revisions
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==How does CoGe ingest GFF annotations== | ==How does CoGe ingest GFF annotations== | ||
[[File:Screen shot 2012-04-17 at 1.10.42 PM.png|thumb|center|800px|CoGe visualization of genomic feature from the rice genome]] | [[File:Screen shot 2012-04-17 at 1.10.42 PM.png|thumb|center|800px|CoGe visualization of [[genomic feature]] from the rice genome]] | ||
Example GFF entry for a protein coding gene | Example GFF entry for a protein coding gene | ||
Revision as of 20:12, 17 April 2012
How does CoGe ingest GFF annotations
Example GFF entry for a protein coding gene
Chr1 MSU_osa1r7 gene 2903 10817 . + . ID=LOC_Os01g01010;Name=LOC_Os01g01010;Note=TBC%20domain%20containing%20protein%2C%20expressed Chr1 MSU_osa1r7 mRNA 2903 10817 . + . ID=LOC_Os01g01010.1;Name=LOC_Os01g01010.1;Parent=LOC_Os01g01010 Chr1 MSU_osa1r7 exon 2903 3268 . + . ID=LOC_Os01g01010.1:exon_1;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 3354 3616 . + . ID=LOC_Os01g01010.1:exon_2;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 4357 4455 . + . ID=LOC_Os01g01010.1:exon_3;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 5457 5560 . + . ID=LOC_Os01g01010.1:exon_4;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 7136 7944 . + . ID=LOC_Os01g01010.1:exon_5;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 8028 8150 . + . ID=LOC_Os01g01010.1:exon_6;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 8232 8320 . + . ID=LOC_Os01g01010.1:exon_7;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 8408 8608 . + . ID=LOC_Os01g01010.1:exon_8;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 9210 9617 . + . ID=LOC_Os01g01010.1:exon_9;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 10104 10187 . + . ID=LOC_Os01g01010.1:exon_10;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 10274 10430 . + . ID=LOC_Os01g01010.1:exon_11;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 exon 10504 10817 . + . ID=LOC_Os01g01010.1:exon_12;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 five_prime_UTR 2903 3268 . + . ID=LOC_Os01g01010.1:utr_1;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 five_prime_UTR 3354 3448 . + . ID=LOC_Os01g01010.1:utr_2;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 3449 3616 . + . ID=LOC_Os01g01010.1:cds_1;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 4357 4455 . + . ID=LOC_Os01g01010.1:cds_2;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 5457 5560 . + . ID=LOC_Os01g01010.1:cds_3;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 7136 7944 . + . ID=LOC_Os01g01010.1:cds_4;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 8028 8150 . + . ID=LOC_Os01g01010.1:cds_5;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 8232 8320 . + . ID=LOC_Os01g01010.1:cds_6;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 8408 8608 . + . ID=LOC_Os01g01010.1:cds_7;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 9210 9617 . + . ID=LOC_Os01g01010.1:cds_8;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 10104 10187 . + . ID=LOC_Os01g01010.1:cds_9;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 CDS 10274 10297 . + . ID=LOC_Os01g01010.1:cds_10;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 three_prime_UTR 10298 10430 . + . ID=LOC_Os01g01010.1:utr_3;Parent=LOC_Os01g01010.1 Chr1 MSU_osa1r7 three_prime_UTR 10504 10817 . + . ID=LOC_Os01g01010.1:utr_4;Parent=LOC_Os01g01010.1