MmuINT0152616 @ mm10
Intron Retention
Gene
ENSMUSG00000063919 | Srrm4
Description
serine/arginine repetitive matrix 4 [Source:MGI Symbol;Acc:MGI:1916205]
Coordinates
chr5:116467432-116467860:-
Coord C1 exon
chr5:116467768-116467860
Coord A exon
chr5:116467589-116467767
Coord C2 exon
chr5:116467432-116467588
Length
179 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ATCTCTTTCTTGATCCCCAGGCA
3' ss Score
9.86
Exon sequences
Seq C1 exon
ATCTCGAAGCCGGAAGTCTCACCGACATAGACATCACCGATGCCCCTCAAGGTCCCAGAGTTCGGAACTGCGCTCCCCCAGCTGCGAGAGCAG
Seq A exon
GTAACCCCTTTGTCCCTGCCCCTCATCTGCCAGCCACATGGACACTCGATGCAGCTTCTGTCCCACAATGAGTAGCTCCTAACCCTCACCCTCACCCTAACCCTAACCCCTAAGCCTAAATCTAAGCCTATGCTCACCTCAGAACGCCTTCAGGTATCTATCTCTTTCTTGATCCCCAG
Seq C2 exon
GCATCGAGGTCGGTCCCCTGAGGAAGGGCGGAAATCCCGCCGAACACACTCCCGCCGCTGCTCCAAGAACCACTGCAAGGTCAGCCCAGACGCCCGGTCCAGCCACCTGCCCAGCCAGCCCCTCCCGAGGCTCGGCTTCCTGTCAGCCAGGGGTGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063919:ENSMUST00000076124:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
ATCTCGAAGCCGGAAGTCTCA
R:
CTGACAGGAAGCCGAGCCTC
Band lengths:
239-418
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