RnoINT0076052 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58499124-58499488:+
Coord C1 exon
chr3:58499124-58499313
Coord A exon
chr3:58499314-58499404
Coord C2 exon
chr3:58499405-58499488
Length
91 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CAAAGCCTTTTCTGCCGTAGGAG
3' ss Score
6.88
Exon sequences
Seq C1 exon
TCAGAAAGGCATCCCAGAATTAGTCCTAAAAGATCAGAAAGATATAGCTCTGGAAATAACGGTGACCAACGGCCCTTCTGATCCAAGGAATCCCCGGAAAGATGGTGACGATGCCCACGAAGCCAAACTCATCGCAACGTTTCCAGACACCCTGACATATTCCGCCTACAGAGAGCTGAGGGCTTTCCCT
Seq A exon
GTAAGTGTTTCTGAGGAAGCAGCAGGGAGGGAAAGACCAGTATCACAGAGCACAGGAACAAGCCATGACCCCAAAGCCTTTTCTGCCGTAG
Seq C2 exon
GAGAAGCAGCTGAGCTGTGTTGCCAACCAGAATGGCTCCCAAGCTGACTGTGAGCTCGGAAATCCTTTCAAGAGAAATTCCAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.344 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(13.2=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAATCCCCGGAAAGATGGT
R:
ATTTCCGAGCTCACAGTCAGC
Band lengths:
168-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]