RnoINT0076069 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58486662-58487884:+
Coord C1 exon
chr3:58486662-58486750
Coord A exon
chr3:58486751-58487765
Coord C2 exon
chr3:58487766-58487884
Length
1015 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
TGCCTGTGCATGCGTTCCAGGTT
3' ss Score
8.38
Exon sequences
Seq C1 exon
ATATTGCTGTTGGAGCTCCCTATGACGATCTGGGGAAGGTTTTTATCTATCATGGATCCCCGACTGGCATAATTACCAAGCCAACACAG
Seq A exon
GTAACCAGATGACCTCTTTAAAATAGTGTCAGCCTTTTGCCTGTATGTAGCTTTAGGTAACTCTTCAGACACATTTCAGTTTCAAGTATTCAATAGTGTGAATTTAAAAATAATATTTATTTATTTTACTTCTAATTATGTGTATGAGAGAGAGGAGGGAAGGGAGAGGGGGAGAAGGGAAGAGGGGAGAGATGGGTAATGGGAGGGAATACTCAGGAGGTTGGGGGTGTCAGATCCCCTGGAACTAGAGCTGCAGGTGGTTGTGAACCTCCTGGTGGTGGTGGGGAAGGCGGGGAAGAATAATACTGGGGTCCTCTGTCCTCTGGATGGACAGTCTGTGCTCTTAACCACTGAGCCATCCCTCAAGCCTGGCGTCAACTGCACAGTATCCCTGGAAGAAGGCTCTGACACACTCACACAGAGGCAGTGACCTGCTTGTTTTAAAAGGTCTCAGCTAAGTTAGGAAATCAGGGTAACCCGGAGTGAAGACCGTTCGACCCAGAGATCGGGAGGAGGTGACCTGTACTGCTTCCCTTAGCAGTGTGCTTGAACAGGATTGAAACAGGATTGAAACAAATAGAACATCGTAATTACACAGAGAATTCAGACCCCAAGGGTTCTAACTTGTTCTGAAAATACGACTGGAGGGGGCAGTTAGAGTTGGTTTTAAACTACACTGATTAACTTAATAAACAAACCAGGCTTTTATCCTTTGGAATACTGGGTGACTCAGATGGCTTTGGTGAAACAAATCACATGGATCTGTACACCTACAACGTAATATAATAATTATGTTCATCAGCTTTTGTTCTAAATGAACTTTATCTTGTTCTCTCTCTGTTTTCTTTGTTACTACTGGTGGTGACAGGGACCCCAGTCCCCGCTCTGTCCGTCCTGGGGAAGTGCTGTACCGCGGAGCTGCCTCCCTGGCGCCTTTGTGTTTTTCTCTCAGCTGTAGCCAGGCAGCTCAGTTAGTGGCCCAGCGTTCATTCTAATGCCTGTGCATGCGTTCCAG
Seq C2 exon
GTTCTTGAGGGTACAACGCCTTTCTTCGGCTACTCAATCGCTGGGAACATGGACCTGGACAGGAATTCCTACCCTGACGTTGCTGTGGGTTCCCTCTCAGACTCAGTAACTATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:8
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:
PF135171=VCBS=PD(4.1=10.0)
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:
GCTGTTGGAGCTCCCTATGAC
R:
AATAGTTACTGAGTCTGAGAGGGA
Band lengths:
198-1213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]