MmuINT0149577 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26369139-26369991:-
Coord C1 exon
chr2:26369912-26369991
Coord A exon
chr2:26369613-26369911
Coord C2 exon
chr2:26369139-26369612
Length
299 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
CAGCCTATTCCTCCCCTCAGAAG
3' ss Score
6.53
Exon sequences
Seq C1 exon
GTCACTGGGCAAGAATCGCTTCTGAATTGCCCCATCGGTCAGGCTCCCAGTGTCTGAGCAAGTGGAAGATCTTGGCCAGG
Seq A exon
GTGAGACATTTGTTTGCTTTCTGTGTGTATGCTTTCCTCGAGCTCAGCAAAAACCCCATAACCTGTAAGAGTGCTTGGGCGAGATGAGGGATTGTGGGATGGGAAGGGAGTGCAAAGGTTCTGGCCCTCTCGTGTCCTTATCAGGAGGCCAAGGACAGAGGGAAAGCATACCTCAGCCCCAGTGTGCTCTGTCCCTGGAGGTGTTCTTCCTTAAGGAACTTCTCCATAGGGTGTCCTGTTTCTCTGTTACCTATATGCCTGGGTATCTGAGACCTGAGGCAGCCTATTCCTCCCCTCAG
Seq C2 exon
AAGAAACAGCATCTGCAGAGGAAGAGAGGGCAGAGGCCCCGTCACAGTAGCCAGTGGAGCTCTAGCGGCAGCAGCAGCAGCAGCAGTGAAGACTACGGCAGCAGCAGTGGCAGCGACGGCAGCAGCGGCAGTGAAAACTCAGATGTGGAGCTGGAGGCGTCTCTGGAGAAGAGTAGAGCACTGACTCCTCAACAGTACAGAGTGCCAGACATTGACCTGTGGGTTCCTACCAGGCTGATCACCAGCCAGTCACAGAGAGAAGGGACAGGGTGCTACCCACAACACCCTGCTGTCTCCTGCTGCACTCAGGATGCCTCTCAAAATCACCACAAGGAAGGTTCTACCACCGTCTCTGCTGCTGAGAAAAACCAGCTGCAGGTGCCCTATGAGACCCACAGCACTGTTCCAAGAGGAGACCGGTTCCTACACTTCTCGGACACCCACTCAGCAAGTTTGAAGGATCCGGCCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:15
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=0.839
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGTGGAAGATCTTGGCCA
R:
GTAGCACCCTGTCCCTTCTCT
Band lengths:
299-598
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