MmuINT0149589 @ mm10
Intron Retention
Gene
ENSMUSG00000036281 | Snapc4
Description
small nuclear RNA activating complex, polypeptide 4 [Source:MGI Symbol;Acc:MGI:2443935]
Coordinates
chr2:26376155-26376725:-
Coord C1 exon
chr2:26376600-26376725
Coord A exon
chr2:26376234-26376599
Coord C2 exon
chr2:26376155-26376233
Length
366 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AACACTGTACACTCTGACAGGGG
3' ss Score
5.05
Exon sequences
Seq C1 exon
GAAGAGATCCTGTTTGATCTGTCTGGAACCAAATGCCCCAAGGTGAAGGATGGCAGAAGTCTGCCCTCATACATGTACATAGGCCACTTCCTGAAGCCATACTTCAAGGACAAGGTTACTGGAGTG
Seq A exon
GTGAGTAGTAATGAACGCTCTTAGCAGTTGGTTGAGTGTCTCTTCTTCATGAGTACTTGGGTCTGTAGGGTGTGTTTCCCTAAAAGAATCACAGCGTTTAGGAAGTCAGTAGTATAAATCTCAAACTGCTGATGCCCTTGTGTGCCTGCATCTTCCTGGAGTCTCAGGCCGCTTCCTTGTACTGGGTGGGTCATGTCCAGAACTTTTCAATCAGTAGTAGCTTGTAGTAGTAGTAGTAGTCTTGGGCCTGGCCCTCCATCTGGGCAGTACATGAGGAGGCTGGAGGGAAGATTCTGAGTCTCCGTAGGTACCCTGGAGGGTGAGTGTGGTTGGTGTGTCATGTTATAACACTGTACACTCTGACAG
Seq C2 exon
GGGCCTCCTGCCAACGAAGAAACACGGGAGAAGGCTACCCAGGGAATCAAGGCCTTTGAACAGCTCTTGGTGACCAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036281:ENSMUST00000114115:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.444
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GATCCTGTTTGATCTGTCTGGAACC
R:
TTGGTCACCAAGAGCTGTTCA
Band lengths:
198-564
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