RnoINT0076397 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104558184-104558965:+
Coord C1 exon
chr10:104558184-104558333
Coord A exon
chr10:104558334-104558776
Coord C2 exon
chr10:104558777-104558965
Length
443 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
TTCCGCCCTCCACCTCTCAGGCG
3' ss Score
8.68
Exon sequences
Seq C1 exon
ATTCCCGTGGGGCTATGGGTGTGCCCGACACACCCACTCGGCTGGTGTTCTCCGCCCTGGGGCCCACATCTCTGAAGGTGAGCTGGCAGGAGCCACAGTGTGATCGAGCACTGCTGGGCTACAGCGTGGAATACCAGCTACTCAACGGCG
Seq A exon
GTGAGCATAGTGACTGTTGGCCGTCACGTTTCCAGGACTGTCCCATCGCAGTAAGGCAGGATCCCTCCAAGTCAGCTGAGGCTTTGCCTATCCCCCGGGGGCCTTTACTGCCCGTTTCTTAAACTAGGTTTTTGCTTAATGGGGCTTCATGGACCTAGGGCCTCTGCTAACTGGAATAGCCTTGTAAGAACAGGGAAATGACACCCCTGGGCAGACACAGTCACCAGAGTGCGGGCTTTGACCAGAGCATTGGTGGGACATCTTACTCTTCAGTAAAGGCTCTACCATTGAGTTACAACGCCCATAACCCCCACTCACTTTAGTCAACAACCCACCACAGTACACTGTACCAAACCCCAGGTGTTGATGGCAGCCTAACGGGAGGGAGGAATAAGACAAGGGCCAGGCGTGAAGGTGGTCTGTTTCCGCCCTCCACCTCTCAG
Seq C2 exon
GCGAGATGCATCGGCTCAACATCCCTAACCCTGGCCAAACCTCTGTGGTGGTAGAGGATCTCCTGCCTAACCACTCCTATGTGTTCCGGGTGCGGGCACAAAGCCAGGAGGGCTGGGGCCGGGAGCGAGAGGGTGTCATCACCATCGAGTCCCAGGTGCACCCGCAGAGCCCTCTCTGCCCCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.312
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTCCCGTGGGGCTATGGG
R:
AGGGGGCAGAGAGGGCTC
Band lengths:
334-777
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]