RnoINT0076301 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61712350-61712841:+
Coord C1 exon
chr19:61712350-61712490
Coord A exon
chr19:61712491-61712641
Coord C2 exon
chr19:61712642-61712841
Length
151 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
TTAATCTTTTTTCCTTTAAGGTT
3' ss Score
11.61
Exon sequences
Seq C1 exon
TCCCTTTCTTCAGAAGTCATTCTGGAAAACAGCAAATTGCCAGATGGAGTAACAATAAATTACAAGTCCTACTGCAAGAATGGAGTGAATGGGACAGGAGAAAATGGACGAAAGTGCTCTAACATTTCCATTGGAGATGAG
Seq A exon
GTATGTTCTATGAGCATTTATGTGAAAAAGGGAAAGAATGCGTAAAAAAAAAAAATCGGGCTGGAGAGATAGTTTAGCAATTAAAGCACTACTAGCATTTGAAATATTTTCATGTTCATTGGCTGAATTTATTAATCTTTTTTCCTTTAAG
Seq C2 exon
GTTCAATTTGAAATTAGCATAACTGCTAATAAATGTCCAAACAAGGAGTCTGAAACAATTAAAATTAAACCTCTGGGCTTCACAGAAGAAGTAGAGGTGGTCCTTCAGTTCATCTGTAAGTGTAATTGTCAAAGCCATGGCATCCCAGCAAGTCCCAAGTGCCATGAGGGAAATGGGACATTTGAGTGTGGAGCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:10
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:
PF0036213=Integrin_beta=FE(10.7=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.3=59.7)
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:
TGGGACAGGAGAAAATGGACG
R:
CTGCAGGCTCCACACTCAAAT
Band lengths:
252-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]