RnoINT0071390 @ rn6
Intron Retention
Gene
ENSRNOG00000011175 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:RGD Symbol;Acc:1310403]
Coordinates
chr4:81240353-81240889:-
Coord C1 exon
chr4:81240743-81240889
Coord A exon
chr4:81240564-81240742
Coord C2 exon
chr4:81240353-81240563
Length
179 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TAACTTTGTATTTATTGTAGGAG
3' ss Score
7.59
Exon sequences
Seq C1 exon
GTTATGCGGGATCCTGCAAGCAAAAGATCAAGAGGATTTGGCTTTGTAACTTTCTCATCTATGGCTGAGGTTGATGCTGCCATGGCTGCAAGGCCTCATTCCATTGATGGCAGGGTGGTTGAGCCAAAACGTGCTGTGGCAAGAGAG
Seq A exon
GTAAGGAAAACCTAAGCACATTGATCTCATTTCTTTTTATACTGTGCATTTTTTGTACATGTTTCTCAATACAAACCTCTTTAAACCTATTGTAACATCTGGAGAATTTGTCTTAAGATGGACATGTAAGATGTAGTCAAGGTTTTTTCTGTCAGAATTTAACTTTGTATTTATTGTAG
Seq C2 exon
GAGTCTGGGAAACCAGGAGCCCATGTGACTGTGAAGAAACTGTTCGTTGGTGGAATTAAGGAAGATACTGAGGAGCATCACCTTAGAGATTACTTTGAAGAATATGGAAAAATTGATACTATTGAAATAATTACTGATAGGCAGTCTGGAAAAAAAAGAGGCTTTGGCTTTGTTACCTTTGATGACCATGATCCTGTGGATAAGATTGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011175:ENSRNOT00000015152:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.252 A=NA C2=0.155
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(57.1=81.6)
A:
NA
C2:
PF0007617=RRM_1=PU(81.4=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:
CATTGATGGCAGGGTGGTTGA
R:
TCCACAGGATCATGGTCATCA
Band lengths:
246-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]