MmuINT0149571 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26374021-26374564:-
Coord C1 exon
chr2:26374492-26374564
Coord A exon
chr2:26374186-26374491
Coord C2 exon
chr2:26374021-26374185
Length
306 bp
Sequences
Splice sites
5' ss Seq
AACGTAAGT
5' ss Score
10.74
3' ss Seq
CTTTGTTCTCATGGGTGTAGTTT
3' ss Score
5.85
Exon sequences
Seq C1 exon
CCAGCTCCCAGAGGAAGCATTGTTGGGGAACCGGCTAGACAGCCACGACTGGGAGAAGATTTCCAATATTAAC
Seq A exon
GTAAGTGAGGAAGACCTGGGTGCCCACTGCTCTAGTAGTGCTTGTAAGCCGAGTGTGGTGGGAACTAGGTGGGGAAGCCTCACTGTCTCTTGTACCTTAACCCACTGTGAAGTCTCCAGTCCAAAGATGCCTGGGAGTTGGAGGTGGCAAAGGACTCCATTGGACTCTCCCTAGCTGCCAGGGTCCCACTCCTGAGATAGGCAGTCTTCATGGCCACTGAAGCCACTGGCAGACAGTGACAATCAGGCCAGGAGCTCTGTCTTGGCATCAGCAGCCCCTCTGAAGGCTTTGTTCTCATGGGTGTAG
Seq C2 exon
TTTGAAGGAGCCCGCAGTGCAGAGGAGATCCGGAAGTTCTGGCAGAGTTCTGAGCATCCAAGCATCAGTAAGCAGGAATGGAGCACAGAAGAAGTAGAGAGGCTGAAGGCCATCGCTGCCACACATGGCCACCTGGAGTGGCACTTGGTTGCAGAGGAACTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0024926=Myb_DNA-binding=PU(93.9=56.4)
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:
CCAGCTCCCAGAGGAAGCATT
R:
CCCAAGTTCCTCTGCAACCAA
Band lengths:
238-544
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