BtaINT0042322 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51873007-51873258:+
Coord C1 exon
chr22:51873007-51873039
Coord A exon
chr22:51873040-51873204
Coord C2 exon
chr22:51873205-51873258
Length
165 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ATCGTCTTTGTCACCTCCAGGGA
3' ss Score
9.84
Exon sequences
Seq C1 exon
GGACCTGGGGGTGCTGGAGCTAAAGGAGAGAAG
Seq A exon
GTATGTCTGGCGAGACGTGAAGGGCAGCTGTTACAGGGTTGAGATCAAGGTCACAGGGCACGCCTCAAGCAGGGCCCCTGGAGGTCATGACAGTTGTGGCATGATTGTTGGGTAGTGGGGCTCATGGAGCCTAGGGCTGAGGCTGATCGTCTTTGTCACCTCCAG
Seq C2 exon
GGAGATATGGGCCCCCCCGGGCCCAAAGGAGCTACCGGATTCAAAGGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGGGTGCTGGAGCTAAAG
R:
CTGTTCCCCTTTGAATCCGGT
Band lengths:
83-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]