MmuINT0149572 @ mm9
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26228839-26229705:-
Coord C1 exon
chr2:26229541-26229705
Coord A exon
chr2:26228987-26229540
Coord C2 exon
chr2:26228839-26228986
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-Snapc4:NR_033572:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PU(45.9=50.9)
A:
NA
C2:
PF057128=MRG=FE(23.6=100),PF0024926=Myb_DNA-binding=PU(56.0=65.1),PF116263=Rap1_C=FE(26.1=100)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: