BtaINT0042332 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51874858-51875088:+
Coord C1 exon
chr22:51874858-51874884
Coord A exon
chr22:51874885-51875058
Coord C2 exon
chr22:51875059-51875088
Length
174 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CACTGGCCATTCCCCCACAGGTG
3' ss Score
9.71
Exon sequences
Seq C1 exon
GGTCCCCCAGGAGCCCCTGGACGGCTG
Seq A exon
GTAAGAACTGACTCGGTCTGATCCTCTGTCATCTCCCCCACCTGCCCCTACTGGCCCCACACATCCCTTTCACTGACTCCCACTTTCCCCACTGCCCCTGGATGTCTTCACTGGTCCTCACCCGCTCCTCTTCCCCTAGTTGGACTGTTCTTCTCACTGGCCATTCCCCCACAG
Seq C2 exon
GTGGACGTGGGACTTGGAGCCGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:56
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:
PF0139113=Collagen=FE(12.3=100),PF0139113=Collagen=FE(9.1=100)
A:
NA
C2:
PF0139113=Collagen=PD(6.2=40.0),PF0139113=Collagen=FE(10.2=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]