BtaINT0042364 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51881314-51881560:+
Coord C1 exon
chr22:51881314-51881382
Coord A exon
chr22:51881383-51881524
Coord C2 exon
chr22:51881525-51881560
Length
142 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATC
5' ss Score
4.28
3' ss Seq
TCACCAGGCATTCCCCGCAGGCT
3' ss Score
8.01
Exon sequences
Seq C1 exon
GGGTCACCAGGTCTGCCAGGCCCTGTCGGACCTAAAGGAGAGCCGGGACCCATGGGGACCCCTGGACAG
Seq A exon
GTGATCTTTGCTCCTGACCCCCAGCTTCCACATCAGCTCCTCTGCCCAGCCCCCAGGCTTAGTCTGTCCCTCCCATCTGGACAGCGGGGTAGGGGTGGGGAGGTGGCAGGAAGTGGGGTGACTCACCAGGCATTCCCCGCAG
Seq C2 exon
GCTGTGGTCGGGCCCCCTGGAGCAAAGGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:87
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(33.8=100)
A:
NA
C2:
PF0139113=Collagen=FE(16.9=100)
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:
GGGTCACCAGGTCTGCCA
R:
CTTCTCTCCCTTTGCTCCAGG
Band lengths:
105-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]