MmuINT0078448 @ mm9
Intron Retention
Gene
ENSMUSG00000004980 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:MGI Symbol;Acc:MGI:104819]
Coordinates
chr6:51414088-51414546:-
Coord C1 exon
chr6:51414427-51414546
Coord A exon
chr6:51414211-51414426
Coord C2 exon
chr6:51414088-51414210
Length
216 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
GTATTCCAATTCTTTTACAGGAA
3' ss Score
10.04
Exon sequences
Seq C1 exon
GTGGCAATTTTGGAGGTAGCCCTGGTTATGGAGGAGGAAGAGGAGGATATGGTGGTGGAGGACCTGGATATGGCAACCAGGGTGGGGGCTACGGAGGTGGTTATGACAACTATGGAGGAG
Seq A exon
GTAATAAATTCATCTACAACCTTTATGTTGGAATTTGGATTAGAATTAATGACATTTATTTTACTGTCGATTAGATAGATTTCTTAAATTGTAGGATTATAGATAGGTATTGTGTACTTTTGTTTTGGAAAATATTTGTCTTAAAAATTAAACATTAGTTTGGCTTCGATGCTTGTATTTTTCAGAGGTTTAGCTGGTATTCCAATTCTTTTACAG
Seq C2 exon
GAAATTATGGAAGTGGAAGTTACAATGATTTTGGAAATTATAACCAGCAGCCTTCTAACTATGGTCCAATGAAGAGTGGAAACTTTGGGGGTAGCAGGAACATGGGAGGACCATATGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004980-Hnrnpa2b1:NM_016806:8
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.780 A=NA C2=0.766
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF116273=HnRNPA1=WD(100=90.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCAATTTTGGAGGTAGCCC
R:
TCCTCCCATGTTCCTGCTACC
Band lengths:
229-445
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: