MmuINT0127117 @ mm10
Intron Retention
Gene
ENSMUSG00000061136 | Prpf40a
Description
pre-mRNA processing factor 40A [Source:MGI Symbol;Acc:MGI:1860512]
Coordinates
chr2:53140461-53141680:-
Coord C1 exon
chr2:53141619-53141680
Coord A exon
chr2:53140593-53141618
Coord C2 exon
chr2:53140461-53140592
Length
1026 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGA
5' ss Score
4.08
3' ss Seq
GTTCGGTGTTTTGTACATAGGAC
3' ss Score
8.11
Exon sequences
Seq C1 exon
AGAGAAGTTACAAGAAGTCAAAAAAGCATAAGAAGAAAAGCAAAAAGAGGAGGCATAAATCT
Seq A exon
GTAAGAAAGTTTCTAGTTTTTAACAGTTCCAAGGCTTTGCTTTGGAAAGGATTCTTCGGCCTTCTCATAATCTAAATCTGTGCTCATTTACCTTGGGAATAAAACCAGAACCTTTAAGTGTGCTTCCCCTTAGTCTTCCATTGTGATCACTCGGAACTTCAAATAGGAACATTCACAAGTACTAGGGTTCCTAACCTGGTCTTTTAAATTTTAAAAGAGACAGAAAAAATAAAAATGCTTGATCAGTTTCTCTTCCAATGCTGTAGATGCATATTAGGTTGGCATAGGGGTTTTTCATCAGTGGTGTCTGAGTTTTAGCACAGATGCCCTGAACTAGATCGGTTGTCTTGGTTTCTATGCTGCTTCCTAGGAGTTTTAGCTATCTAACCCAGAACTACTTATTTAAGCACTAACATTTTAAATAACTTGTTTTCTCTGTGATTTTTCAACCTTGTTCCATGGATTAAATGAACAGCTTAGTCAGCAGTATCCTTATACAGATCTAAGTAAACCAGAGATATGCTTGATGAAAAATGTGCAGGAACTAAGGCTCTATATAGCTCATTAAGGGTGTGTGTTTAGCATGTATGTGGGGCCCTGGGTTCTAAATAAGTAAGTAATATCGCTCTATACTTACACAATAGATATAACCTGGTGCTGAGGCTCTTAATAGTGTTTTAACATATCCAGATGTTGTTCTTCCTGCGTTGAACACTGGAGAAACTCTAGTTTTGGGGATCAGAGTGGGGGATGATGGCGCACACCTTTAGTCTCAGCATTTGTGAGGCAGAGACAGGCAGATCTCTGAGTTTGAGGCCAGGCTGCTTTCAGAGCAAGCTCCACAGCAGTCAGAAATGCACAGAGAAACCCTGTCTCAGCATCTTAACAACAACAATTCCTGGGGTCAACTCACTACATTCTTACACCTAACCTATAAGTGTGATATTATTAAACATCTGCATAAATAATCTGTAAAAGAATGGTATGCTTATCAAAATTCTGATATGTTCGGTGTTTTGTACATAG
Seq C2 exon
GACTCTCCAGAATCAGATACTGAACGAGAAAAGGATAAAAAAGAAAAAGATCGGGACAGTGAAAAAGACAGAAGTAGACAGAGATCAGAATCAAAACACAAATCACCTAAGAAAAAGACTGGAAAGGATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061136:ENSMUST00000076313:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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