BtaINT0042298 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51868291-51868649:+
Coord C1 exon
chr22:51868291-51868417
Coord A exon
chr22:51868418-51868502
Coord C2 exon
chr22:51868503-51868649
Length
85 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TGACATGTCCTTTCTCCCAGGCA
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTCGGCCTCCTGTCCTACAGTCACCGGCCCTCCCCACTGTTGTCGCTGAACAGCTCCCATGACCTTGGCGTCATCCTGCAGAAGATCCGCAACATCCCCTACACGGACCCAAGTGGGAACAACCTGG
Seq A exon
GTAAGGACTCCAATGGACATGGACTCTTGGGGCTCTCCCTTGGGGAGCTCGGTGCCCCTGGGTTCTGACATGTCCTTTCTCCCAG
Seq C2 exon
GCACAGCCGTGGTTACAGCCCACAGATACCTGCTGGCACCAGATGCGCCTGGACGCCGCCGGCATGTGCCGGGGGTGATGGTTCTCCTGGTGGATGAGCCCTTGAGAGGTGACATCTTCAACTCTATCCGTGAGGCCCAGGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0009223=VWA=FE(23.9=100)
A:
NA
C2:
PF0009223=VWA=FE(27.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCCGCAACATCCCCTACA
R:
GGGCCTCACGGATAGAGTTGA
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]