RnoINT0076395 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104557228-104557772:+
Coord C1 exon
chr10:104557228-104557464
Coord A exon
chr10:104557465-104557613
Coord C2 exon
chr10:104557614-104557772
Length
149 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTTGTTTTGTCCTGCCCTAGGCC
3' ss Score
9.97
Exon sequences
Seq C1 exon
AGCACCTGGTGAATGGCCGGATGGACTTTGCCTATCCAGGCAGTGCCAACTCCCTGCATAGGATGACTGCTGCCAACGTGGCCTATGGCACACATCTAAGCCCACACCAGACCCACCGAATGCTGAGCACGTCTTCTACCCTTACCCGGGACTACCACTCTCTGACGCGCACAGACCACTCTCAGTCAGGCACACTTCCCCGGGACTACTCCACTCTCACTTCCCTTTCCTCCCAAG
Seq A exon
GTGAGTGACCCTTGATTCACCCACCCCCACCCCGGCATTGCGACACTCCAACCCCTAGACAGCCTCCAGTCAGCTACACACACACACACACACACACACACACACACACACACACCCGCCCCTCTCACTCTTGTTTTGTCCTGCCCTAG
Seq C2 exon
GCCTCCCTCCTATCTGGGAAGATGGGAGGAGCAGGCTTCCGCTGTCCTGGACCCTTGGGTCCTGGAGCCGGGCTCAGATGAAGGGTGTGCCCGCATCCAGGGGCTCACCAGACTCTATAATCCTGGCCGGGCAGTCAGCAGCGCCCTCCTGGGGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.713 A=NA C2=0.383
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGGATGGACTTTGCCTATC
R:
GCTCCTCCCATCTTCCCAGAT
Band lengths:
254-403
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]