DreINT0083047 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3505128-3505439:+
Coord C1 exon
chr9:3505128-3505226
Coord A exon
chr9:3505227-3505328
Coord C2 exon
chr9:3505329-3505439
Length
102 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTG
5' ss Score
4.41
3' ss Seq
CTTTAGCATCATTTTTACAGTCT
3' ss Score
3.24
Exon sequences
Seq C1 exon
GATTCGTCAATCAGGAAAAAGCGGGAGCTGGAGGAGAGAAGACCGTCTGAGGGGAATAAAATATCCCTTTTCACTGACAAACGCAAACATAAGATCCTG
Seq A exon
GTACTGAGATTTATTTAATCTATATCTGTATTGAATGTTCATTTTTAAGAACGATAGCACCCAATCAGCTTCTTGAAATGAACTTTAGCATCATTTTTACAG
Seq C2 exon
TCTTGCAGTGGGGATGCCAGATGTGTGGAGATTAAGTGCCCTCTACAGGGCCTGGACAGTACTGCGGTCATCGTCTTGAAATCCCGCCTGTGGAACTCCACTTTCCTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.212 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(6.9=100)
A:
NA
C2:
PF084417=Integrin_alpha2=PD(2.6=32.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTCGTCAATCAGGAAAAAGCGG
R:
CTCAAGGAAAGTGGAGTTCCA
Band lengths:
210-312
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]