DreINT0050095 @ danRer10
Intron Retention
Gene
ENSDARG00000101816 | col5a3b
Description
collagen, type V, alpha 3b [Source:ZFIN;Acc:ZDB-GENE-110728-4]
Coordinates
chr1:58567623-58567800:-
Coord C1 exon
chr1:58567747-58567800
Coord A exon
chr1:58567668-58567746
Coord C2 exon
chr1:58567623-58567667
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
GTATCTTGTGTGTTCGTCAGGGT
3' ss Score
6.95
Exon sequences
Seq C1 exon
GGTCTGGCGGGGCTGACGGGTCAGAGGGGTCTTCCAGGTCCTCCAGGACAGCAG
Seq A exon
GTAAGCAGACGGACACCTCTACATTTAGCAGTGTGTGTGTGAGAGACGCAGCATCATGTGTATCTTGTGTGTTCGTCAG
Seq C2 exon
GGTATTCGTGGGATTGATGGCGTTCAGGGCTCAAAGGGGAACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101816:ENSDART00000170580:19
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCAGAGGGGTCTTCCAG
R:
GTTCCCCTTTGAGCCCTGAAC
Band lengths:
79-158
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]