BtaINT0042291 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51866133-51866656:+
Coord C1 exon
chr22:51866133-51866279
Coord A exon
chr22:51866280-51866533
Coord C2 exon
chr22:51866534-51866656
Length
254 bp
Sequences
Splice sites
5' ss Seq
CCCGTAGGC
5' ss Score
0.7
3' ss Seq
CGTGCTTTATTTTCCTCTAGCTC
3' ss Score
9.6
Exon sequences
Seq C1 exon
GTGGCCCCACAAGACAGCAGATTCTCCCAGGAAACACGGACTCCGCAGAAATACGGGGCCTCGAAGGCGGAGTCAGTTATTCAGTGAGAGTGACCGCACTCATAGGGGACCGCGAGGGCGCGCCTGTCTCCATTGTCGTCACCACCC
Seq A exon
GTAGGCAGAGCTTGGGCTGGGGCGAGCCTTGGCTTCCTCCAGGGCTTGGGGGCGGGGTTTGTGCTCGGGAATAGAAAAGGGACCAGGGATTGGTCGTCGTGAACCTGTGGGGGTGGGGTCTTCTGGGGGAGGCGGGATGCAGCCTGGATCCTGGGGCCTATTGGGGGCGGTGCGTCTTCCAGGGTTGGCCTGGGATTGGCACAGATCGGGGTGGGGCGGAGCCTCCCTGATGGGCGTGCTTTATTTTCCTCTAG
Seq C2 exon
CTCCGGAGGCTCCTCCAGCCCTGGAGACACTTCGCGTGGAGCAGCGAGGGGAGCACTCACTGAGGCTGCACTGGCAGCCGGTGCCTGGTGCACGCGGCTTCCGTCTGCGTTGGCGACCTGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.500
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(51.9=82.0)
A:
NA
C2:
PF0004116=fn3=PU(45.6=85.7)
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:
GTGGCCCCACAAGACAGC
R:
CTCAGGTCGCCAACGCAG
Band lengths:
269-523
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]