BtaINT0042340 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51877165-51877309:+
Coord C1 exon
chr22:51877165-51877200
Coord A exon
chr22:51877201-51877273
Coord C2 exon
chr22:51877274-51877309
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AGCAGCCTTGTCTTCCTTAGGGA
3' ss Score
8.2
Exon sequences
Seq C1 exon
GGAGAACCCGGGGACCCTGGAGAAGACGGGAGGAAG
Seq A exon
GTGAGTTGCCCTCGCGTGGATTCTGCTCTGGCTCAGACTGGGGCCGGGTCTGAAGCAGCCTTGTCTTCCTTAG
Seq C2 exon
GGAGAGAAGGGAGATTCAGGCGCCCCTGGGAGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:65
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACCCTGGAGAAGACGG
R:
CCAGGGGCGCCTGAATCTC
Band lengths:
55-128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]