RnoINT0071401 @ rn6
Intron Retention
Gene
ENSRNOG00000052968 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:RGD Symbol;Acc:727807]
Coordinates
chr3:62484612-62484881:+
Coord C1 exon
chr3:62484612-62484701
Coord A exon
chr3:62484702-62484785
Coord C2 exon
chr3:62484786-62484881
Length
84 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CACTGTAACCCATGTTACAGGTC
3' ss Score
6.36
Exon sequences
Seq C1 exon
TTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAGTCTGCTGGATCACAGAGAG
Seq A exon
GTGAGTTGGATCAGATACACATAAATAATAGACATGAACAGTTAAGGAAAGATTTTGGAGTTTTCACTGTAACCCATGTTACAG
Seq C2 exon
GTCGTGGAGGTGGATCTGGCAACTTTATGGGACGTGGAGGAAACTTTGGTGGCGGCGGAGGAAACTTTGGGCGTGGAGGAAACTTTGGTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052968:ENSRNOT00000078872:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=0.485
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(62.8=87.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAATACCACACTATTAATGGGCA
R:
TTCCTCCACGCCCAAAGTTTC
Band lengths:
169-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]