MmuINT0152609 @ mm10
Intron Retention
Gene
ENSMUSG00000063919 | Srrm4
Description
serine/arginine repetitive matrix 4 [Source:MGI Symbol;Acc:MGI:1916205]
Coordinates
chr5:116446490-116447364:-
Coord C1 exon
chr5:116447254-116447364
Coord A exon
chr5:116446625-116447253
Coord C2 exon
chr5:116446490-116446624
Length
629 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
CCGCTGCTACACCCCTTCAGGGA
3' ss Score
6.99
Exon sequences
Seq C1 exon
GTCCTACTCTCGCTCTCCCAGCTATTCGTCCAAGTCTGGCAAGAGGAGCCCACCTAGCAGAAGCTCCAGGTCTCGTCGAAGTCCCAGCTACTCTCGCTACAGCCCCAGCAG
Seq A exon
GTATCACCCCATTCCCTAGGGCGGATCCACCACCACCCCCCAACTCTCACCCCCCACCCGCCCCGCGCATTCCTACTCCCGCTCCTGAGCCACATCCCTTAGACCTTACCTAGAAGTACCCAGTATCCCAAGCCTTAACCCAGCAAAGGTAGGGACAGGAATTCTTGCAATTCTTTTTCTTTTTTTTTTTTTTTCCAAACGTAAGTGGCAACAAGGCCTCAATACACCCTTTATTCTACTGTCCTTTCACATCTGGGTGCTCGGTTTCCTTGCTTGACTTGTTGCATCCTCTTGCCCCTGTATTCATAGCCCTGATTCTTGCCCACCCCAGTGCCTTCTAATATATTCCTCCTCACCCACTAGTATTTGTGCCTCTGTCAAGGGGAGCGCACACGCATGCGCGCGCGCACCCACCCACGCACAGAGGCCGCCACTCTGCCAGCTCATCCCATGGTGCTCACGGGAGCAGATTCTTCCCAGAGTGCGTCACCTTCCCGCCCCTGACAAAGCCTAGCCTCAGTGAACACAGTTAAGAGTCTCACACAGCACGCACCCGTAGAAAAGCCAGCCCAGCCCTAGTTACCTAGTAACACCCACGGCCCCTCGTGCCCGCTGCTACACCCCTTCAG
Seq C2 exon
GGAACGGGACCTAAAGTATGGTGAGAAAGAACCACAGCCCCGAGAACGTGCGCGCAGGAGGCGACGGTCCTACTCACCCATGAGGAAGCGCAGGAGAGACTCCCCAAGCCACCTGGAGGCTCGGAGGATAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063919:ENSMUST00000076124:11
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:
PF152301=SRRM_C=PU(10.9=18.4)
A:
NA
C2:
PF152301=SRRM_C=PU(60.0=94.7)
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:
GTCCTACTCTCGCTCTCCCAG
R:
CTGGTTATCCTCCGAGCCTCC
Band lengths:
246-875
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