RnoINT0071388 @ rn6
Intron Retention
Gene
ENSRNOG00000011175 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:RGD Symbol;Acc:1310403]
Coordinates
chr4:81241036-81241282:-
Coord C1 exon
chr4:81241244-81241282
Coord A exon
chr4:81241147-81241243
Coord C2 exon
chr4:81241036-81241146
Length
97 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTC
5' ss Score
7.46
3' ss Seq
AATGGTGTTTTCCTTTGCAGAGA
3' ss Score
11.02
Exon sequences
Seq C1 exon
CAGAAAACTTTAGAAACTGTTCCTTTGGAGAGGAAAAAG
Seq A exon
GTACTCTGCCAGCAGGTCACCTCATATTTAAGAATTTAATTTCCTGCATACAAAGAGAAAATGTAAATAAAAATTGAAATGGTGTTTTCCTTTGCAG
Seq C2 exon
AGAGAAAAGGAACAGTTCCGTAAGCTCTTTATTGGTGGCTTAAGCTTTGAAACCACAGAAGAAAGTTTGAGAAACTACTACGAGCAATGGGGAAAGCTCACAGACTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011175:ENSRNOT00000015152:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.885 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF142591=RRM_6=PU(40.0=75.7)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACTTTAGAAACTGTTCCTTTGGA
R:
ACAGTCTGTGAGCTTTCCCCA
Band lengths:
143-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]