DreINT0083048 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3505329-3505629:+
Coord C1 exon
chr9:3505329-3505439
Coord A exon
chr9:3505440-3505530
Coord C2 exon
chr9:3505531-3505629
Length
91 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGG
5' ss Score
3.53
3' ss Seq
TGTCTTTCTCTTTAAAACAGGAT
3' ss Score
9.77
Exon sequences
Seq C1 exon
TCTTGCAGTGGGGATGCCAGATGTGTGGAGATTAAGTGCCCTCTACAGGGCCTGGACAGTACTGCGGTCATCGTCTTGAAATCCCGCCTGTGGAACTCCACTTTCCTTGAG
Seq A exon
GTTTGGACAATGAAGAGAGCTCATTTTTGTACTCTTGAAAGAACTTTTGTCTGATTGTTAAAATAATGTCTTGTCTTTCTCTTTAAAACAG
Seq C2 exon
GATTTTGCATCCTACAATTACCTTGATATCATAGTGAAAGCCTCCATAAGTCTTGATGTTTCTGCCAAGAATATCGTCCTGAAAAATCCTGAAACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=PD(2.6=32.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGATGCCAGATGTGTGGAGA
R:
TCAGGACGATATTCTTGGCAGA
Band lengths:
183-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]