MmuINT0139966 @ mm10
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:97030416-97031061:+
Coord C1 exon
chr11:97030416-97030589
Coord A exon
chr11:97030590-97030879
Coord C2 exon
chr11:97030880-97031061
Length
290 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCTCTCTTCTTTACCTCCAGTGT
3' ss Score
10.15
Exon sequences
Seq C1 exon
ATGGCGTCGTCGAGCCCCGATGCCCCTTGTTCCTGCGACTGTTTTGTCTCTGTGCCCCCGGCCTCAGCCATCCCAGCTGTAATCTTTGCAAAGAACTCAGACCGGCCCCGAGATGAGGTGCAGGAGGTGGTGTTTATACCAGCAGGCACTCACGTCCCTGGGAGCCGGCTTCAG
Seq A exon
GTGGGTTAGGACTTAGAAGGAGCTGGAAGGTTGAGACGTTATTCCCAGACCTTCGTTTTCTTGCTCCTGGGACGGGAGCAGATGGAGTGGAACGAGTACGGAGTTCCAGTCCACCAACCTGGACCCTTGAGTGGAGTTAGCTTCTGCTAACTCGGTTTACTTATGTGTGACCTGAGAATAAGACCTTTCTCAGGGCCATTTAAAGTGGCTGACAAAGGGTCCGGGCAGTGTAAGTTCTGGGTCTTTTTTTTTTTTTCACTGAATTCTTCCTCTCTCTTCTTTACCTCCAG
Seq C2 exon
TGTACCTATATCGAGGTGGAACAGGTGGGGAAGACACACGCTGTGATTCTGAGCCGCCCCTCTTGGCTGTGGGGAGCTGAGATGGGGGCCAACGAGCTTGGTGTCTGCATTGGAAACGAAGCAGTGTGGACCAAAGAGCCTGTGGGGCAGGGGGAAGCCCTGCTGGGTATGGACCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877:ENSMUST00000021249:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0357710=Peptidase_C69=PU(21.0=60.7)
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:
CCCTTGTTCCTGCGACTGTTT
R:
CAGGCTCTTTGGTCCACACTG
Band lengths:
293-583
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