RnoINT0076068 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58486332-58486750:+
Coord C1 exon
chr3:58486332-58486525
Coord A exon
chr3:58486526-58486661
Coord C2 exon
chr3:58486662-58486750
Length
136 bp
Sequences
Splice sites
5' ss Seq
CGGGTGGGT
5' ss Score
6.14
3' ss Seq
TTTTAATGTAATGTCAATAGATA
3' ss Score
5.21
Exon sequences
Seq C1 exon
GTGGCAAGACATCGTTATCGGAGCGCCACAGTACTTTGACAGGGATGGCGAAGTCGGGGGTGCGGTGTACGTCTACATTAACCAGCAAGGCAGATGGAGTAATGTGAAGCCAGTTCGTCTAAATGGGACCAAAGACTCGATGTTTGGAATCGCAGTGAAAAATATCGGCGATATTAATCAAGATGGCTATCCGG
Seq A exon
GTGGGTGATAGGTTATGAAGTGGTTACCATTCGTAGAAAGTGGGTGGGTGTGCCTAATGAGCACTCACAGCATCTTACTTTAAGATGCTGGAGTATTTTTTTAAATAATAACTTGTTTTTAATGTAATGTCAATAG
Seq C2 exon
ATATTGCTGTTGGAGCTCCCTATGACGATCTGGGGAAGGTTTTTATCTATCATGGATCCCCGACTGGCATAATTACCAAGCCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:7
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=FE(87.8=100)
A:
NA
C2:
PF135171=VCBS=PD(4.1=10.0)
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:
AGCGCCACAGTACTTTGACAG
R:
TTATGCCAGTCGGGGATCCAT
Band lengths:
245-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]