MmuINT0166775 @ mm9
Intron Retention
Gene
ENSMUSG00000041096 | Tspyl2
Description
TSPY-like 2 [Source:MGI Symbol;Acc:MGI:106244]
Coordinates
chrX:148774176-148774550:-
Coord C1 exon
chrX:148774405-148774550
Coord A exon
chrX:148774271-148774404
Coord C2 exon
chrX:148774176-148774270
Length
134 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCTCCCCACCCCTCAACAGATC
3' ss Score
9.16
Exon sequences
Seq C1 exon
GCCGGTTGGTGTCTCATTCTACCCCAATACGTTGGCACCGGGGCCAGGAACCCCAGGCCTATAATCGCAGGAGCCATGACACCAGAGAAAGCTTCTTCAACTGGTTTTCCAATCACAGCCTCCCAGAAGCTGACAGAATTGCTGAG
Seq A exon
GTGAGGCCCCTCCTGGCATTGCCAGGGAAAGCCTTTCAAGACTTGTCCCTGGGTGCCTGAGAAATTGTGAGTGGGTTCTAGGACTTAAACTCCTTGAACTCCTTTTCACTCTCCCCCTCCCCACCCCTCAACAG
Seq C2 exon
ATCATCAAGAACGACCTGTGGGTTAACCCAGTACGCTACTATATGAGACGAGGTGGCTACAGATCAAGCAGAAAGAAGCAACACGGAAAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041096-Tspyl2:NM_029836:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.375
Domain overlap (PFAM):
C1:
PF0095613=NAP=FE(25.7=100)
A:
NA
C2:
PF0095613=NAP=PD(9.1=53.1)
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:
GCCGGTTGGTGTCTCATTCTA
R:
TTCCGTGTTGCTTCTTTCTGCT
Band lengths:
234-368
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: