RnoINT0076375 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104538669-104538967:+
Coord C1 exon
chr10:104538669-104538772
Coord A exon
chr10:104538773-104538865
Coord C2 exon
chr10:104538866-104538967
Length
93 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGC
5' ss Score
5.3
3' ss Seq
GCCAACTCCCCCTGCCCCAGGGC
3' ss Score
6.32
Exon sequences
Seq C1 exon
ACCGGGGACGCTGCTCCATGGGAGAGTGTGTGTGTGAGCCTGGTTGGACCGGCCGCAGCTGTGACTGTCCCCTCAGCAATGCCACCTGTATCGATAGCAATGGG
Seq A exon
GTAGGCTTGGGCACTGGGGAAGTGGTGTGAGCACTGGAGGGGGCAGGGAAGGATGGGGCTCTGCTGGCTCACTGCCAACTCCCCCTGCCCCAG
Seq C2 exon
GGCATCTGCAATGGACTAGGCTTCTGTGAGTGTGGCCGTTGTCACTGCAACCAGCGGTCTTCGCTCTACACGGACACCACCTGTGAGATCAACTACTCGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:14
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:
PF079748=EGF_2=PD(64.5=57.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATGGGAGAGTGTGTGTGT
R:
GTGTCCGTGTAGAGCGAAGAC
Band lengths:
167-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]