RnoINT0076390 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104551622-104552248:+
Coord C1 exon
chr10:104551622-104551779
Coord A exon
chr10:104551780-104552067
Coord C2 exon
chr10:104552068-104552248
Length
288 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GAGCAGCCGCCTACTCACAGGTG
3' ss Score
3.68
Exon sequences
Seq C1 exon
ATGAAACGGACAGAAGTCTCATAAATGAGATATCCGCATCGCCGCCACTACCCCGTGGAGACCTGGGTGCCCCGCAGAACCCCAATGCCAAGGCTGCCGGATCCAGGAAGATCCATTTCAACTGGCTGCCCCCTCCTGGCAAGCCAATGGGGTATAGG
Seq A exon
GTAAGGTGAGGGGCATTGGGGAGGTCTGTCATTCACCTTCTGCTGGTGAGTGGACTGCCGCAAGTGTGAGGGAGACCACACTTGTTGCTCCCAGCGGGCCGATAAAACCCCATCTGTGACCCTGCAAGCGTGAGGGCCTGCGTTCTCGAGGTCTTCAGCTTCGTTCCCAGAATGGGGTCTTTACCCAGCCTGGGAGATCCACTGCTCTGCCGGAGCTCTGACCTTGTCACTTGTACAAAGGGAGTCCCAGAGTTTGCTGCTTCCCGCTGAGCAGCCGCCTACTCACAG
Seq C2 exon
GTGAAATACTGGGTCCAGGGCGACTCTGAGTCCGAAGCCCACCTGCTGGACAGCAAGGTGCCCTCAGTGGAGCTCACCAACCTGTATCCCTATTGCGACTACGAAATGAAGGTGTGCGCCTACGGGGCACACGGGGAGGGGCCCTATAGCTCACTGGTGTCCTGCCGCACCCACCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.547 A=NA C2=0.197
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(37.0=56.6)
A:
NA
C2:
PF0004116=fn3=PD(60.5=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAGATATCCGCATCGCCG
R:
ACACCAGTGAGCTATAGGGCC
Band lengths:
295-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]