RnoINT0076060 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58504167-58504461:+
Coord C1 exon
chr3:58504167-58504277
Coord A exon
chr3:58504278-58504362
Coord C2 exon
chr3:58504363-58504461
Length
85 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGG
5' ss Score
4.48
3' ss Seq
ACCTCTCTCGTCGCCCGTAGGAA
3' ss Score
12.55
Exon sequences
Seq C1 exon
AACTGCAGCGTCAACGTGAGGTGTGTGAACATCAGGTGTCCACTGCGAGGGCTGGACAGCAAGGCCTCTCTCGTTCTACGCTCCAGGCTGTGGAACAGCACGTTTCTAGAG
Seq A exon
GTGTGGCTCTACCTCCTGGAGGAATTTGCTACTGCCAATGGCAGGACATTTGTCGGTTTCCTAACACCTCTCTCGTCGCCCGTAG
Seq C2 exon
GAATATTCCAAACTGAACTACTTGGACATCCTCGTGAGGGCGTCCATAGATGTGACCGCCGCCGCTCAGAATATCAAGCTCCCTCATGCGGGCACTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:22
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(2.5=32.4)
A:
NA
C2:
NO
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:
ACGTGAGGTGTGTGAACATCA
R:
AGCTTGATATTCTGAGCGGCG
Band lengths:
178-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]