MmuINT0149572 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26373319-26374185:-
Coord C1 exon
chr2:26374021-26374185
Coord A exon
chr2:26373467-26374020
Coord C2 exon
chr2:26373319-26373466
Length
554 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAAG
5' ss Score
3.53
3' ss Seq
TTCTCTATGTCCTTGGGAAGACA
3' ss Score
1.44
Exon sequences
Seq C1 exon
TTTGAAGGAGCCCGCAGTGCAGAGGAGATCCGGAAGTTCTGGCAGAGTTCTGAGCATCCAAGCATCAGTAAGCAGGAATGGAGCACAGAAGAAGTAGAGAGGCTGAAGGCCATCGCTGCCACACATGGCCACCTGGAGTGGCACTTGGTTGCAGAGGAACTTGGG
Seq A exon
GTAAAGACTAGGACCTGGGAGACCTTAGAAGGGTGGGAGGACATGGGCTGCTGGGTCAGTCTCATGCTCTGTAGTGTGGTGCACACAGCAAGCATTACTCATGCTCTGTAGTGTGGTGCACACAGCAGGCATTAGGAATTGTTTGGTAAATTTGCTTTTAAAGAAATTTGTCTCTTTCATCTTTTTAACTTTAAATTTCATTATGTCTGTGAAAATATCACCCTTTACCTCAAACTCTTGGCACCTCTCCTGCTTTGGGATTGGGCTGGGATTAACACCAGAGCTGTCTATGGCCAAGTTTTCTTTCTATAAGCCATAGAGTCCTCTCTGAGCTGCTCCTGTCCTGGGACCCAACCATGGTCTAGCAAACTATCACCTGGTAAGAGCCTGGAGGAGGCAGGAGAGTTCTGCTGTACAGAGCGCTCGCTGCCTGTGGCTCAGGCCCACCTGTCTTCTGGAAGCACTTGGGTCTCCTGGAAGGTTGTGCCAGGTATTTCTGCACGTGCAAGGTGAAGCCCAATAATGCCCACTTGTTTCTCTATGTCCTTGGGAAG
Seq C2 exon
ACAAGCCGCAGTGCCTTTCAGTGCCTGCAGAAATTCCAGCAGTACAACAAAACCCTGAAACGCAAGGAGTGGACAGAAGAGGAAGACCACATGCTCACCCAGCTGGTCCAAGAGATGCGAGTTGGGAACCATATCCCATACCGCAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PU(93.9=56.4)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PU(56.0=65.1)
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:
TTTGAAGGAGCCCGCAGTG
R:
TGCGGTATGGGATATGGTTCC
Band lengths:
310-864
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