MmuINT0149571 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26229541-26230084:-
Coord C1 exon
chr2:26230012-26230084
Coord A exon
chr2:26229706-26230011
Coord C2 exon
chr2:26229541-26229705
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-Snapc4:NR_033572:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.036
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139211=Myb_DNA-bind_6=PU(45.9=50.9)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: