RnoINT0076049 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58496586-58497027:+
Coord C1 exon
chr3:58496586-58496746
Coord A exon
chr3:58496747-58496883
Coord C2 exon
chr3:58496884-58497027
Length
137 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTCACTGCGCCCTTTGCAGGAA
3' ss Score
10.1
Exon sequences
Seq C1 exon
CAATTTTGGGTATTCTTGAAGCTGAAAAAGAAAGAAGAAAGTCAGGGTTGTCGTCAAGAGTTCAGTTTCGAAACCAAGGTTCTGAGCCAAAGTATACTCAGGAGCTGACCCTGAACAGGCAGAAGCAGCGGGCATGCATGGAGGAGACGCTCTGGCTGCAG
Seq A exon
GTGAGTGTGTGGCACCCGACCAGGGCTCGGGTGTCCTGGGGGACGCTTGGTTTCTGAACCTTCATCTCTGCGCTGACATCGTTTTGGAGGTCCGTTCGCATTTGAGCACACTGACTGTGTCACTGCGCCCTTTGCAG
Seq C2 exon
GAAAACATCAGAGACAAGCTGCGCCCCATCCCCATCACGGCTTCTGTGGAGATCCAGGAGCCCAGCTCTCGACGGCGGGTGAATTCACTTCCAGAAGTTCTTCCCATCTTGAATTCAAATGAAGCCAAAACAGTGCAGACAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.296 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(11.1=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(9.9=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:
GGGTTGTCGTCAAGAGTTCAGT
R:
TGTCTGCACTGTTTTGGCTTCA
Band lengths:
258-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]