MmuALTA0014214-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000061136 | Prpf40a
Description
pre-mRNA processing factor 40A [Source:MGI Symbol;Acc:MGI:1860512]
Coordinates
chr2:53145824-53146208:-
Coord C1 exon
chr2:53146094-53146208
Coord A exon
chr2:53145890-53145915
Coord C2 exon
chr2:53145824-53145889
Length
26 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
TTCTTTAGTTTTTTCATTAGGAT
3' ss Score
6.29
Exon sequences
Seq C1 exon
ATCTTTCTGGACGAGTTGCACGAGCATGGGCAGCTGCACTCTATGTCCTCTTGGATGGAGCTGTATCCCACCATCAGCTCTGACATTCGCTTCACTAACATGCTGGGTCAGCCGG
Seq A exon
GATCAACTGCACTTGATCTTTTCAAG
Seq C2 exon
TTTTATGTTGAAGATCTTAAAGCACGATATCATGATGAAAAGAAGATAATAAAAGACATTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061136-41-39,41-38,41-37-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0184614=FF=FE(67.9=100)
A:
NA
C2:
PF0184614=FF=PD(17.9=32.3)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCTCTTGGATGGAGCTGT
R:
TCTTCTTTTCATCATGATATCGTGCT
Band lengths:
118-144
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