MmuINT0166774 @ mm10
Intron Retention
Gene
ENSMUSG00000041096 | Tspyl2
Description
TSPY-like 2 [Source:MGI Symbol;Acc:MGI:106244]
Coordinates
chrX:152339862-152340197:-
Coord C1 exon
chrX:152340086-152340197
Coord A exon
chrX:152340008-152340085
Coord C2 exon
chrX:152339862-152340007
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGTATCTCTTCCTCTTCTAGGCC
3' ss Score
12.6
Exon sequences
Seq C1 exon
GTACAGGACCTCAGACATATCTCCATGGGCTACAAAATGAAGCTGTACTTCCAGACAAACCCATACTTTACAAACATGGTGATCGTCAAGGAGTTCCAGCGCAACCGCTCAG
Seq A exon
GTAAGTGATAGTCCCAGGATAAACCTATGGCCCCTATACTATCATTTCCCCTTCCTTCTGTATCTCTTCCTCTTCTAG
Seq C2 exon
GCCGGTTGGTGTCTCATTCTACCCCAATACGTTGGCACCGGGGCCAGGAACCCCAGGCCTATAATCGCAGGAGCCATGACACCAGAGAAAGCTTCTTCAACTGGTTTTCCAATCACAGCCTCCCAGAAGCTGACAGAATTGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041096:ENSMUST00000044509:3
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=0.245
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(19.8=100)
A:
NA
C2:
PF0095613=NAP=FE(25.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCGTCAAGGAGTTCCAGCG
R:
TTCTGTCAGCTTCTGGGAGGC
Band lengths:
170-248
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