RnoINT0076047 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58492277-58492677:+
Coord C1 exon
chr3:58492277-58492375
Coord A exon
chr3:58492376-58492615
Coord C2 exon
chr3:58492616-58492677
Length
240 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
ATGTGTTTGATTTTATGCAGCCT
3' ss Score
6.41
Exon sequences
Seq C1 exon
ATCCCGGCCAGTGATTAACATTCTGAAAACCATCACAGTGACTCCTAGCAGAATTGACCTCCGCCAGAAATCCATGTGTGGGTCACCTAGCGGGATATG
Seq A exon
GTGAGTCCCTCTTGTGATTCTGGGGGCCAGCTCAGTTCTCAGCTTTGTGATGACTTGTTTGACCTGACGAGCCACTGAGAAGGTGTGCTGGACAAAGGGGTGAGCCGAGATGCTGTCCGGCGGACATATTGTTTACTCACCAGTGGGCAGTGGGGACACTGGAGGGCTGGGGACAGACAGGGTGGGGTCTTCCACTGCTACAGTGCATCTTTTAAGAAATATGTGTTTGATTTTATGCAG
Seq C2 exon
CCTCAAGGTTAAAGCCTGTTTTGAATATACTGCGAAGCCCTCCGGTTATAACCCTCCAATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:10
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=PU(6.7=94.1)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(4.4=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:
TCCCGGCCAGTGATTAACATT
R:
CGGAGGGCTTCGCAGTATATT
Band lengths:
142-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]