BtaINT0042362 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51880985-51881180:+
Coord C1 exon
chr22:51880985-51881020
Coord A exon
chr22:51881021-51881099
Coord C2 exon
chr22:51881100-51881180
Length
79 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
ACAGAGCTCTTCCCTCTCAGGGG
3' ss Score
5.65
Exon sequences
Seq C1 exon
GGTCCTCAAGGGGCACCGGGTTTGCCTGGACAAGTG
Seq A exon
GTGAGTCCTGGGGGTCAGGGCCGGGCTCTGGGGCTCGGGAGTCAGCGGGCAGGCCCCTGACAGAGCTCTTCCCTCTCAG
Seq C2 exon
GGGGAGACGGGAAAGCCGGGAGCGCCAGGTCGTGATGGTGCCACTGGGAAAGATGGAGACAGAGGAGCCCCCGGTGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:85
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(15.3=100)
A:
NA
C2:
PF0139113=Collagen=PD(33.3=88.9),PF0139113=Collagen=PU(30.8=74.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGTTTGCCTGGACAAGTG
R:
GGGCTCCTCTGTCTCCATCTT
Band lengths:
90-169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]