MmuINT0149581 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26233681-26234156:-
Coord C1 exon
chr2:26234014-26234156
Coord A exon
chr2:26233800-26234013
Coord C2 exon
chr2:26233681-26233799
Length
214 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGC
5' ss Score
6.46
3' ss Seq
CCACCCCTGCTGCCATCTAGCCT
3' ss Score
4.17
Exon sequences
Seq C1 exon
GCAGGCTGAAGCCATGGACATAGACGCCGAACGAGAGAAAATAACACAGGAGATCCAGGAGCTTGAAAGGATTTTGTATCCTGGATCCACCAGCGTCCACTTTGAAGTCTCTGAATCCAGTCTCAGTTCAGACTCTGAAGCAG
Seq A exon
GTGTGCCCATGAACCTGGCCTAGCACGGCATGGCTGGAACGGCTGTGTGTACCCTTTAGCTAAATTAGGCTGTGGACTGTTCCATGGTCAGACTCTGTTTCTTGCCCAAACTGTCTTCTACTTTCACCTCAGTAAGAAAGTTTGTTTCAGTTTCTTAGTCTTAGCTGTCAGGGCTGCTGACTATTTGTGTATAACCACCCCTGCTGCCATCTAG
Seq C2 exon
CCTGGGACCCTCTAAGCAATGGTGAATCCTGGTGGGGAGAAGAGGACCCAGAGCTCAGCCTATCAACTTGAATAGTCTCCATGGCCCAGATACACAGAATTTCGTCCCTGAGCACTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281-Snapc4:NR_033572:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.735 A=NA C2=0.696
Domain overlap (PFAM):
C1:
PF0364610=FlaG=PD(93.5=87.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCCATGGACATAGACGCC
R:
TGGAGTGCTCAGGGACGAAAT
Band lengths:
255-469
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: