MmuINT0139971 @ mm10
Intron Retention
Gene
ENSMUSG00000020877 | Scrn2
Description
secernin 2 [Source:MGI Symbol;Acc:MGI:1343092]
Coordinates
chr11:97033319-97033958:+
Coord C1 exon
chr11:97033319-97033499
Coord A exon
chr11:97033500-97033665
Coord C2 exon
chr11:97033666-97033958
Length
166 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ACCTCTGATTTTCACAACAGGAG
3' ss Score
8.51
Exon sequences
Seq C1 exon
GTCGGTATTCAAGCCTTTCATCTTTGAAGTGGGGGTGTCCCAGTCCCCCCAGGTGTTGTCCCCCACTTTTGGAGCCCAGGACCCTGTTCGGATCCTCCCACGATTCCAGACTCGGGTGGACCGTCGGCACTCACTCTATCGTGGACACCAGGCAGCCCTGGGGCTGATGGAGGATGAGCAG
Seq A exon
GTAACCCCGGGGACTGTGCTGAGGGCAGGTAGGAAATATCTTTTTGGATATTCTGGGACCAGAAAAGGGCTGTAGATCTGAGGAGAGGTGGGACCTTCAGCTAGTCTTGGGAGACCCTGCCTGCAGGGAGAGGGTTCACATTTTTCACCTCTGATTTTCACAACAG
Seq C2 exon
GAGCAGGCACAGCAACTCCGGAAAAAGCAGCAGAGGCTGGAGCAGGAAGGCCTAGAGGCTCTCAGAGGGCTGCTTACGGGTGAACAGACCCCACCAGCCCAGGGCCTGGGCAGCCTCTTCCAGGCCTTTGTGGAGAGGGAAGAGCAGGCCTATGCTTAAGCATGCAGGAGCTCTGGGGCCGGCTGCCCTGAGCTGTGGTGGGTGCGGTGGTGGGGTTGAGTCACAGCCATCCCTTCACCCTGCTCATCCAGGTTTGGAGTGACTTAATAAATGTTTTATCTCCTTCTTCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020877:ENSMUST00000021249:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.246 A=NA C2=0.577
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:
GGATCCTCCCACGATTCCAGA
R:
CATAGGCCTGCTCTTCCCTCT
Band lengths:
246-412
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