MmuINT0139970 @ mm10
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:97033064-97033499:+
Coord C1 exon
chr11:97033064-97033229
Coord A exon
chr11:97033230-97033318
Coord C2 exon
chr11:97033319-97033499
Length
89 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTCAACCTGTGTCTTATTAGGTC
3' ss Score
9.93
Exon sequences
Seq C1 exon
GGAACATCACAGCAGAGGTGATGATGGGCATCCTCAGGGACAAGGAGAGCGGCATCTGCATGGACTCCGGAGGCTTCCGCACCACAGCCAGTATGGTATCGGTCCTGCCCCAGGATCCCACAAAGCCCTGTGTCCACTTCCTCACTGCCACCCCAGACCCATCCAG
Seq A exon
GTGAGGGGTGAAGGGGACACACTGCAGTGTCAGGGACATGGCAGCACCTGTTCCTGGTTACTTCAGTCCTTCAACCTGTGTCTTATTAG
Seq C2 exon
GTCGGTATTCAAGCCTTTCATCTTTGAAGTGGGGGTGTCCCAGTCCCCCCAGGTGTTGTCCCCCACTTTTGGAGCCCAGGACCCTGTTCGGATCCTCCCACGATTCCAGACTCGGGTGGACCGTCGGCACTCACTCTATCGTGGACACCAGGCAGCCCTGGGGCTGATGGAGGATGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877:ENSMUST00000021249:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.161 A=NA C2=0.246
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTATGGTATCGGTCCTGCCC
R:
AATCGTGGGAGGATCCGAACA
Band lengths:
182-271
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