MmuINT0149573 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26372974-26373466:-
Coord C1 exon
chr2:26373319-26373466
Coord A exon
chr2:26373081-26373318
Coord C2 exon
chr2:26372974-26373080
Length
238 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGC
5' ss Score
6.31
3' ss Seq
CCAGTCTTCTCTGTCCCCAGTCG
3' ss Score
9.38
Exon sequences
Seq C1 exon
ACAAGCCGCAGTGCCTTTCAGTGCCTGCAGAAATTCCAGCAGTACAACAAAACCCTGAAACGCAAGGAGTGGACAGAAGAGGAAGACCACATGCTCACCCAGCTGGTCCAAGAGATGCGAGTTGGGAACCATATCCCATACCGCAAGA
Seq A exon
GTAAGCCCACCACATCCAATAGCATCTTTCAGTTCATTGAGCTGCTCCAAGCCCTAGTGGCCTGAGGCCCTAGGTGCCTGGAAGCAGAGACTTGCAGAAGAGTTTACAGTTATACTAGGGAGAAGTGGGAGGGGGATCCTAGTGACAGAGTAACTCTTCTCTGTAGCTTCTGGGAGGACCCCAGTCCCTGCTTATTGCCTCTATAGGACAGATAAATCCCAGTCTTCTCTGTCCCCAG
Seq C2 exon
TCGTCTACTTCATGGAAGGGAGAGACTCCATGCAGCTGATCTACCGTTGGACCAAGAGCTTAGATCCCAGCCTGAAAAGGGGATTCTGGGCCCCAGAGGAAGATGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:11
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=0.000
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PU(56.0=65.1)
A:
NA
C2:
PF0024926=Myb_DNA-binding=PD(40.0=55.6),PF139211=Myb_DNA-bind_6=PU(9.8=16.7)
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:
CAAGCCGCAGTGCCTTTCAG
R:
CATCTTCCTCTGGGGCCCA
Band lengths:
252-490
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