MmuINT1020745 @ mm10
Intron Retention
Gene
ENSMUSG00000046434 | Hnrnpa1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:MGI Symbol;Acc:MGI:104820]
Coordinates
chr15:103242644-103243080:+
Coord C1 exon
chr15:103242644-103242718
Coord A exon
chr15:103242719-103242921
Coord C2 exon
chr15:103242922-103243080
Length
203 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GAAGACTTGTATTCTTATAGGTG
3' ss Score
5.93
Exon sequences
Seq C1 exon
GTGGCTTTGGTGGCAGCCGTGGTGGTGGTGGATATGGTGGCAGTGGGGATGGCTATAATGGATTTGGCAATGATG
Seq A exon
GTAAGTTTCCTAAGGAGTCTGTAAGTAATGGTTTCTGGAAACCTGTACCTTTAGAGTAGGCTAGTAGAAACTAAACTTAGTGCATGACAAAGTTCGATCAGTCCCATAAATGTGCATGCTATGAGCAGCCTTTAGCTATTATCTTGCATACATTTTTCCTGTTAAATACTTTTGTCTTATTGAGAAGACTTGTATTCTTATAG
Seq C2 exon
GTGGTTATGGAGGAGGCAGCCCTGGTTACTCTGGAGGAAGCAGAGGCTATGGAAGTGGTGGACAGGGTTATGGAAACCAGGGCAGTGGCTATGGCGGGAGTGGCAGCTATGACAGCTATAACAACGGAGGAGGCGGAGGCGGCTTTGGCGGTGGTAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046434:ENSMUST00000036004:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.712 A=NA C2=0.815
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTGGTGGCAGCCGTGG
R:
CACTACCACCGCCAAAGCC
Band lengths:
230-433
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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