MmuINT1020739 @ mm10
Intron Retention
Gene
ENSMUSG00000046434 | Hnrnpa1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:MGI Symbol;Acc:MGI:104820]
Coordinates
chr15:103243959-103244955:+
Coord C1 exon
chr15:103243959-103244028
Coord A exon
chr15:103244029-103244255
Coord C2 exon
chr15:103244256-103244955
Length
227 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TATTCCATATTGTTCAACAGGAA
3' ss Score
8.23
Exon sequences
Seq C1 exon
GTGGCTATGGCGGTTCCAGCAGCAGCAGTAGCTATGGCAGTGGCAGGAGGTTCTAATTACATACAGCCAG
Seq A exon
GTAAGTGCCTCCTTTGTGTGTGTTTGCTAAATGTTATAATTGAACCCAGTAACCCAAATGTAGCTGAGCAGTACAACATAGTTAACATTATAATTTCAGTAAAATGGTGGATGTTAAGTTAATATGCAGTTCAGCAAAATTTGTGGGAAACAACTTGCTCTATTGGATTGTAGCCTTGAGTCTTAATGTGTTTTAGATTAACAACTTTATTCCATATTGTTCAACAG
Seq C2 exon
GAAACAAAGCTTAGCAGGAGAGGAGAGCCAGAGAAGTGACAGGGAAGCTACAGGTTACAACAGATTTGTGAACTCAGCCAAGCACAGTGGTGGCAGGGCCTAGCTGCTACAAAGAAGACATGTTTTAGACAATACTCATGTGTGTGGGCAAAAACTCCAGGACTGTATTTGTGACTAATTGTATAACAGGTTATTTTAGTTTCTGTTCTGTGGAAAGTGTAAAGCATTCCAACAAAAGGTTTTACTGTAGACCTTTTTCACCCATGCTGTTGATTGCTAAATGTAATAGTCTGATCATGACGCTGAATAAATGTGTCTTTTTTTTTTTTTTTTTAAATGTGCTGTGTAAAGTTAGTCTATTCTGAAGCCATCTTGGTAAACTTCCCCAACAGTGTGAAGTTAGAATTCCTTCAGGGTGGTGCCAAGTTCCATTTGGAATTTATTTATGGTTGCTTGGGTGGAGAAGCCATTGTCTTCAAAAACCTTGATGTCGTTAAACTGCCAGTTACTATTGTAACTTTTAATGAGTTTCACCATTGAAAGGGTCATCCAAGCAAGGTCACAATTTGGTTATAAAATGGTTGTTGGCACACCCTATGCAATATCAAAATTGAATAACGGTATCAGATAAAATAACAGATGGGAATGAAGCTTATGTATCCATTATCATGTGTACTCAATAAACGATTTAATTCTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046434:ENSMUST00000036004:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGTGGCAGGAGGTTCTAAT
R:
ACAGCATGGGTGAAAAAGGTCT
Band lengths:
304-531
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