BtaINT0042330 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51874256-51874609:+
Coord C1 exon
chr22:51874256-51874327
Coord A exon
chr22:51874328-51874564
Coord C2 exon
chr22:51874565-51874609
Length
237 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CTGACCCTCTGCCTCTGCAGGGG
3' ss Score
10.53
Exon sequences
Seq C1 exon
GGAGCGCCTGGAGCTCGGGGGCCTGTGGGTGAGAAGGGAGACCAGGGAGATCCTGGAGAGGAAGGACGAAAT
Seq A exon
GTGAGTCATGACCTCTGACCCCTGAACTCTAACCTCAGCTTCCATCTCCAACCATCCAGCTCCCAGCCTCTGACCCTGCCACCCCAACCCTGCAATGCCCAACCCTCACAGTGATTTCCTGTGACCCCTCATCACAACCCTCAAAGGCCACAAGGATCCCCATGAGTCCCTCGGGTGTTTCCAAAGCCCCCCAGACTGCCGCCCCTCCTCACTGACCCTGACCCTCTGCCTCTGCAG
Seq C2 exon
GGGAGCCCTGGACCGTCTGGACCCAAGGGTGACCGTGGGGAGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:54
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(35.4=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.5=100),PF0139113=Collagen=PU(12.5=73.3)
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]