MmuINT0078449 @ mm10
Intron Retention
Gene
ENSMUSG00000004980 | Hnrnpa2b1
Description
heterogeneous nuclear ribonucleoprotein A2/B1 [Source:MGI Symbol;Acc:MGI:104819]
Coordinates
chr6:51463411-51464211:-
Coord C1 exon
chr6:51464089-51464211
Coord A exon
chr6:51463494-51464088
Coord C2 exon
chr6:51463411-51463493
Length
595 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
TCTTGTTTCAATCATTGCAGGGA
3' ss Score
8.93
Exon sequences
Seq C1 exon
GAAATTATGGAAGTGGAAGTTACAATGATTTTGGAAATTATAACCAGCAGCCTTCTAACTATGGTCCAATGAAGAGTGGAAACTTTGGGGGTAGCAGGAACATGGGAGGACCATATGGTGGAG
Seq A exon
GTAATTATTAAACACAGTTCTTCTGGGTGATTGGGAAGTCATGGAAGTCCATACAGTTCTGCATCTCAGAAAGCGAGGAATCTAATAGATGCTAGCTAAGGAGAGTGTCCTCGTGTAACTGTTAAATGATTTTTGTTGGTAGTATGGGTTGGAGGGGCATTGTTTTTAGATAGGGTCTCTTATTCTAGGATTTCTACCACACCCAATTTAGTGATTAGCTCTTGAATTTAGCAATCATTTTACTCCCAGTAATCCTGGCAATGGGGAGATGGAGATCATGTTTTTCAGTCTTCCTTGTCCTTCATATGAAATCATGTCTCAAATATGCTCTGCCATTTAGCTTCATAAGGTCCAACCTATTTTAAGCTTGCTTGTGTTTGAAAGTAGTAGACTTAGAAAGGTGTGTCACACTTTTCACGTGCTTTTAATCATTAGTACTCAAAAGGAGTAAAATCACTTTATTTACATTGTAGGGCAGCCAGGTCTGTGTACAGACTATCACAAGGCTGAAAGAGAACTTAATTTCCACAATACAGACATAAACCTTCAGATTTATATATGTTCTAAGTGTGCTTTCTTGTTTCAATCATTGCAG
Seq C2 exon
GGAACTATGGTCCTGGAGGAAGTGGAGGAAGTGGTGGCTATGGTGGAAGGAGCAGATATTAAGCTTCTTCCTACTTACCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004980:ENSMUST00000069949:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.839 A=NA C2=0.978
Domain overlap (PFAM):
C1:
PF116273=HnRNPA1=PU(94.7=87.8)
A:
NA
C2:
PF116273=HnRNPA1=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGTGGAAGTTACAATGATTTTGG
R:
CCATGGTAAGTAGGAAGAAGCT
Band lengths:
198-793
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types