RnoINT0076399 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104559084-104559484:+
Coord C1 exon
chr10:104559084-104559239
Coord A exon
chr10:104559240-104559319
Coord C2 exon
chr10:104559320-104559484
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCCA
5' ss Score
1.44
3' ss Seq
AAGGCATTTTCCCTACGCAGGAC
3' ss Score
6.46
Exon sequences
Seq C1 exon
GCTCCGCCTTCACCTTGAGCACCCCCAGCGCCCCAGGCCCCCTGGTGTTCACTGCCCTAAGCCCAGACTCTCTGCAGCTGAGCTGGGAGCGCCCAAGAAGGCCCAACGGAGATATCCTTGGCTACCTGGTGACCTGTGAGATGGCCCAAGGAGGAG
Seq A exon
GTGCCACCTGCCGAGGAAATGAGGTGGGAGTGGAGGGAGGGGGAAGCGCCACAGGATCTGAAGGCATTTTCCCTACGCAG
Seq C2 exon
GACCAGCCAGAACCTTCCGGGTGGATGGGGACAACCCTGAGAGCCGGCTGACGGTTCCTGGCCTCAGTGAGAACGTTCCTTACAAGTTCAAGGTGCAGGCCCGGACAACAGAGGGCTTTGGGCCCGAGCGTGAGGGTATCATCACCATCGAGTCTCAGGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.226 A=NA C2=0.804
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(49.4=81.1)
A:
NA
C2:
PF0004116=fn3=PD(49.4=76.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTACCTGGTGACCTGTGAGA
R:
TGGTGATGATACCCTCACGCT
Band lengths:
183-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]