MmuINT0139969 @ mm9
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:96894069-96894543:+
Coord C1 exon
chr11:96894069-96894284
Coord A exon
chr11:96894285-96894377
Coord C2 exon
chr11:96894378-96894543
Length
93 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
CTCCACTCCGTCCTGGGCAGGGA
3' ss Score
6.28
Exon sequences
Seq C1 exon
GAGGTGCCCGGAATATTTCCAACCAGCTGAGCATTGGTACAGACATCTCAGCTGAACACCCGGAGCTCCGCAGCCATGCCAAGGCTCAGGGTTGGTGGACTGGGCAGGGCCTCTTTGACTTTGCGGAGGTCTTCTCCCTGACCCAGCAGCCTGTGCGCATGGAGGCTGCCAAGGCCCGCTTCCGGGCAGGGTGTGAGATGCTGCAGCGGCATCAAG
Seq A exon
GTCTGTGAGTGGTGGGCAGGAGGGCCACAGCACCCCAGCTGGAGTCCCTGTCACACTCACGTTTGCTGAGTCCCTCCACTCCGTCCTGGGCAG
Seq C2 exon
GGAACATCACAGCAGAGGTGATGATGGGCATCCTCAGGGACAAGGAGAGCGGCATCTGCATGGACTCCGGAGGCTTCCGCACCACAGCCAGTATGGTATCGGTCCTGCCCCAGGATCCCACAAAGCCCTGTGTCCACTTCCTCACTGCCACCCCAGACCCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877-Scrn2:NM_146027:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.161
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(40.3=97.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGGTGTGAGATGCTGCAG
R:
GCAGTGAGGAAGTGGACACAG
Band lengths:
178-271
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: