BtaINT0042307 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019081 | COL7A1
Description
collagen, type VII, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2214]
Coordinates
chr22:51869993-51870206:+
Coord C1 exon
chr22:51869993-51870028
Coord A exon
chr22:51870029-51870170
Coord C2 exon
chr22:51870171-51870206
Length
142 bp
Sequences
Splice sites
5' ss Seq
CCAGTAAGT
5' ss Score
9.09
3' ss Seq
CTTTGCTCTTTTGCCCTCAGGGA
3' ss Score
12.28
Exon sequences
Seq C1 exon
GGCTCCCCAGGGTGGGCCGGCCCTCGTGGAGAACCA
Seq A exon
GTAAGTTTTTCTCCCTCTTGGCGTTTTCCCAGAGCTCTTTCTGCGGTGTGGGGACCCGGGGTGGTGGAGTGGGATTGGCCTGTGGGGGCCCAAACTGAAACGCGCTGAGATCAGACATCACCCTTTGCTCTTTTGCCCTCAG
Seq C2 exon
GGAGAGCGAGGACCTCGAGGCCCAAAGGGGGAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019081:ENSBTAT00000025418:33
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(16.7=100)
A:
NA
C2:
PF0139113=Collagen=FE(16.7=100)
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:
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]