DreINT0050093 @ danRer10
Intron Retention
Gene
ENSDARG00000101816 | col5a3b
Description
collagen, type V, alpha 3b [Source:ZFIN;Acc:ZDB-GENE-110728-4]
Coordinates
chr1:58567918-58568126:-
Coord C1 exon
chr1:58568073-58568126
Coord A exon
chr1:58567963-58568072
Coord C2 exon
chr1:58567918-58567962
Length
110 bp
Sequences
Splice sites
5' ss Seq
AAAGTCAGT
5' ss Score
1.98
3' ss Seq
ATTATTTGACTCTCCCTCAGGGT
3' ss Score
7.94
Exon sequences
Seq C1 exon
GGAGATACAGGCAAGAAAGGGCCAGTCGGACCCCCAGGAGCCCCTGGAGAAAAA
Seq A exon
GTCAGTGAACATTTCTTGCACATCCTTTCTTTGTGTGTGTGCATGTGTGTGTGTGTGTGTGTGTGTGCATATGTGACGAGGCTGACAGTGATTATTTGACTCTCCCTCAG
Seq C2 exon
GGTTCTGATGGTCAGCCGGGGCCGAGAGGTCAATCAGGAGAACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101816:ENSDART00000170580:17
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:
GGAGATACAGGCAAGAAAGGGC
R:
GGTTCTCCTGATTGACCTCTCG
Band lengths:
98-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]