BtaINT0042317 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51871888-51872038:+
Coord C1 exon
chr22:51871888-51871923
Coord A exon
chr22:51871924-51872002
Coord C2 exon
chr22:51872003-51872038
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GACCCATTCTGTTCCATCAGGGT
3' ss Score
8.51
Exon sequences
Seq C1 exon
GGCGACCGAGGACTAACAGGGGCCGCTGGAGAGAAG
Seq A exon
GTCAGTGCACCCTGGGGGGTCTCTCAGGGCCCTGCAGGGTCTGGGGCAGACTTGGTTCTGACCCATTCTGTTCCATCAG
Seq C2 exon
GGTGAACGTGGATCGCCTGGCCCAGTGGGACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:42
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=PD(3.1=16.7)
A:
NA
C2:
NO
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:
GCGACCGAGGACTAACAGGG
R:
CCACTGGGCCAGGCGATC
Band lengths:
63-142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]