MmuEX0023091 @ mm9
Exon Skipping
Gene
ENSMUSG00000004980 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:MGI Symbol;Acc:MGI:104819]
Coordinates
chr6:51410313-51413492:-
Coord C1 exon
chr6:51413410-51413492
Coord A exon
chr6:51411919-51412054
Coord C2 exon
chr6:51410313-51411432
Length
136 bp
Sequences
Splice sites
3' ss Seq
TTTCCCTGCTGGAATTTTAGCAT
3' ss Score
5.58
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
Exon sequences
Seq C1 exon
GGAACTATGGTCCTGGAGGAAGTGGAGGAAGTGGTGGCTATGGTGGAAGGAGCAGATATTAAGCTTCTTCCTACTTACCATGG
Seq A exon
CATTGATATGAACCATGGACAAGTATATTCTGCTGCCACAAAGACTGTAAAGTGCTTCATTTCAACAGCTGAGGCAAGCCAAGTGATCATTAATAAAGCTTTTCTTGCTTCCTTCAGTGGTGTTGGTAGTAAAATG
Seq C2 exon
GAAGGTGTCTTGCTGCAGGTAACTAATGAAGAAGTGGTCAACCACAGAGTCTTCAAGAAATAAGAAATTCTGTACCATCTGAAAGTAGTTCTTGTTGGTGCCTTCATTTAAGAAGCACTTTTAAGAAAAGGGAATGTTTTCTGATTTAAAACTTCATTTAGTACAGGTTCTTAATAAAATTACAAAAATGCTGATTGTAAAGGGTAACATCAAATTAGCAAAGGATAATGTATTGTTTTAGGATTTGTGAGTAGACAGATAAGAGCTCTATTTTAAATACAAGTTTTATAAAATAAATACTTTTGTATCCAAATTACTTGGTGTAATGCTTACACATAAGTGTGAATCTTGTTCTATCAACATCAGTTGTCTACAAGATCGACACTATAAATGCTAGACTAGTTTTGCACAGAACTATACATTTAGTTCTCATTCAATACTAATAGGAGAAAAAAGCATTAATAGGCATTATTTACTGTCTAATAAAATATACCTTACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004980_MULTIEX1-2/2=C1-C2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.958 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF116273=HnRNPA1=PD(0.1=0.0)
A:
NO
C2:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGGCTATGGTGGAAGGAG
R:
ACCCTTTACAATCAGCATTTTTGT
Band lengths:
257-393
Functional annotations
There are 2 annotated functions for this event
PMID: 20946641
By UPF1 KD proteomics, HNRNPA2B1 is upregulated. This event and the associated ones (retained intron downstream) are regulated by HNRNPA2B1 itself.
PMID: 31911676
[CRISPR screen]. Conserved poison exon with negative fitness/survivability impact when depleted: HeLa No Change at 14 days (FC=0.987, FDR=0.857), PC9 Depleted at 14 days (FC=0.773, FDR=0.001), Late Xenograft No change (FC=1.071, FDR=0.618).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: