MmuINT0139968 @ mm10
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:97032089-97032970:+
Coord C1 exon
chr11:97032089-97032288
Coord A exon
chr11:97032289-97032754
Coord C2 exon
chr11:97032755-97032970
Length
466 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGA
5' ss Score
6.45
3' ss Seq
AAGTTCCTCTTCTTATACAGGAG
3' ss Score
6.67
Exon sequences
Seq C1 exon
GCTGGCTTTGGAACGGAGCAGCACTGCCCAGGAGGCTGTTCACGTGATTGCAGGCTTGCTGGACCGCTATGGGCAGGGAGGCAGCTGCCGGGAGGATCCAGAGCCGTTCTGCTATCACAACACCTTTTTACTGGCTGATCGGACAGAGGCGTGGGTGCTGGAGACAGCTGGGAGCCTGTGGGCTGCTCAGCGGATCCAGG
Seq A exon
GTAGGAGTCTAGCGTAGAGCCTGCCTCCAAGAGGGAACCTAGACCTCCCCAGGTACTGCCCTCCACTTCTGGAGGCTACCATTTTTGTTCTTCCTGACAGCCTTGGGCAGTGGGAAAGCTGATGGGTCATAAAGGGACAGGGAGGGACACCCTGGGAGACTAGAAATGAACACACTTAGTAACTCTCTCCTTCACCTGACCAAATGTCCTCATGCTTCAGCCTGCCCCTTCCTCTGGGAAGCCTTCTGGATCTCCCTGTGTGGTTAGGAGGTCTTATACAAGCAGCTACCACTTTGCTGTCAAGTCTGTCCCCTATGATTTAGTTCTGATTGCTTTGTCTCCTCATTACCACAGGCCCCTCAAGGGCAGGTTGTACTTGTTTAAACTGTCATCTAAGTATGTCACCCAGGGTCTAGCACATAGTAGGTGCCCCATAACAGATAAACAAGTTCCTCTTCTTATACAG
Seq C2 exon
GAGGTGCCCGGAATATTTCCAACCAGCTGAGCATTGGTACAGACATCTCAGCTGAACACCCGGAGCTCCGCAGCCATGCCAAGGCTCAGGGTTGGTGGACTGGGCAGGGCCTCTTTGACTTTGCGGAGGTCTTCTCCCTGACCCAGCAGCCTGTGCGCATGGAGGCTGCCAAGGCCCGCTTCCGGGCAGGGTGTGAGATGCTGCAGCGGCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877:ENSMUST00000021249:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(50.4=96.9)
A:
NA
C2:
PF0357710=Peptidase_C69=PD(40.3=97.3)
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:
CTTTGGAACGGAGCAGCACTG
R:
CTGCTGGGTCAGGGAGAAGA
Band lengths:
344-810
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