BtaINT0042376 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51883918-51884225:+
Coord C1 exon
chr22:51883918-51883962
Coord A exon
chr22:51883963-51884189
Coord C2 exon
chr22:51884190-51884225
Length
227 bp
Sequences
Splice sites
5' ss Seq
GCGGTGGGT
5' ss Score
6.6
3' ss Seq
CATTATCATCTCTCGTGCAGGGT
3' ss Score
8.58
Exon sequences
Seq C1 exon
GGTGAAGATGGCCGCCCCGGCCTGGAGGGACCCCGAGGACTTGCG
Seq A exon
GTGGGTCCCCTGGGGGAGAGGAGCAGTGGCGTGACCCAGTCCCCTGCCTGAGCCCTCTGTGCCCTTGGGGGTCTCCACAGCCTCTGCTGCCCTCTGCTTCTCCACATCTGCTCTCTGGTCCCTTGTCTCCCCCATTCCCCGGGGCCTTCCAGTCCTCCCCTGCACTCTGAGCCATCTGCCCACTGGTCCCCCCAGATTCCCTTAGCTCATTATCATCTCTCGTGCAG
Seq C2 exon
GGTCCCCCAGGCATCCGGGGAGAACGTGGGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:98
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(23.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(18.3=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]