RnoINT0076059 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58503977-58504277:+
Coord C1 exon
chr3:58503977-58504075
Coord A exon
chr3:58504076-58504166
Coord C2 exon
chr3:58504167-58504277
Length
91 bp
Sequences
Splice sites
5' ss Seq
CTCGTGAGT
5' ss Score
8.41
3' ss Seq
ACCACCAGTCTCCTCTTTAGAAC
3' ss Score
5.01
Exon sequences
Seq C1 exon
GAGTCTCACAACTCAAGAAAGAAGCGGGAACTTCCTGAAAAACAGATAGACGACAGCAGGAAGTTTTCTCTATTTTCCGAAAGAAAATACCAGACCCTC
Seq A exon
GTGAGTATTTTTCCAGGCCGTGGATGTGCCCTGTGCGAACAAGGGATGGTTTCCCAGAAGCGTGGGTTCTGACCACCAGTCTCCTCTTTAG
Seq C2 exon
AACTGCAGCGTCAACGTGAGGTGTGTGAACATCAGGTGTCCACTGCGAGGGCTGGACAGCAAGGCCTCTCTCGTTCTACGCTCCAGGCTGTGGAACAGCACGTTTCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(6.7=100)
A:
NA
C2:
PF084417=Integrin_alpha2=PD(2.5=32.4)
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:
AGAAAGAAGCGGGAACTTCCTG
R:
TGGAGCGTAGAACGAGAGAGG
Band lengths:
169-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]