MmuINT0166772 @ mm10
Intron Retention
Gene
ENSMUSG00000041096 | Tspyl2
Description
TSPY-like 2 [Source:MGI Symbol;Acc:MGI:106244]
Coordinates
chrX:152340303-152342425:-
Coord C1 exon
chrX:152341540-152342425
Coord A exon
chrX:152340381-152341539
Coord C2 exon
chrX:152340303-152340380
Length
1159 bp
Sequences
Splice sites
5' ss Seq
GCAGTATCC
5' ss Score
-5.12
3' ss Seq
TAAACTGCTCCACTCATCAGTTC
3' ss Score
3.66
Exon sequences
Seq C1 exon
AGAGCTGGTCGCGTGAGGTGTGGCGGCTCCGCTTCAAGTGTGACTGGTGGCTACGGCCTTGTCTGAGAGCCGCAGAGCCAGTGTTGTGAGTGCGGTCACCATGGACCGCCCGGACGAGGGGCCTCCGGCCAAGACCCCCCGCCTGAGCAGCTCGGAACCCCGTCAGCGCGACCTGCCGCCCCCGCCACCCCCACCGCTCCAGCGACTGCCCCTGCCTCCACCCCAGCAGCGTCCGAGACCCCAGGAAGAAACCGAGGCTGCACAGGTGCTGGCTGACATGAGGGGGGTGGGCCCCACGCTGCCCCCACCACTGCCCTATGTCATTCTTGAGGAAGGGGGGATCCGCGCGTATTTCACCCTGAGTGCTGAGAGTCCCGGATGGGATCACGCAATGGAGTCAGGGTTCGGGGAGGCCCCTTCCACAGGGATCATGGAAACGCTCCCATCTTCAGAAATCTCTGGGGGAAGCCTGGCAATTGACTTTCAGGTTGCAGAGCCCAGCAGCCTCGGAGAGAAGGCCCTAGAAACCTGTAGCTTAGGAGGGTGGGGGCCCCAGATGTTAGTTGGTCCGAAGAGGAAGGAGGAGGCTATCATAATAGTGGAAGATGAGGATGAGGATGACAAGGAGAGTGTGAGGAGGCGGCAGCGTCGGAGGAGGAGGAGAAGGAAGCAGAGGAAGGCGAAGGAGAGCCGAGAGAGGAGTGCCCAGAGGATGGAGAGCATACTGCAGGCCCTGGAGAGCATTCAAATGGACCTGGAGGCGGTGAACATCAAGGCAGGCAAGGCCTTCTTGCGTCTCAAGCGCAAATTCATCCAGATGCGAAGGCCCTTTTTGGAGCGCAGAGACCTCATCATCCAGCATATCCCAGGCTTCTGGGTCAAAGCA
Seq A exon
GTATCCTTCTCATCAGTATGCATGGGCCAGAAGCCCATGACTGAAGGGGAGATGTGTGGAAGAGAGAGAAGAGGTGTGGGGGAGGGTCAGAGATGAGGATGATGAATCCCCATTAGAAGATTCTAGAAGGCGTGGAAGAGGGATGGCAAGAGGGCAAAATCGCATCTAAAACTAGACTGCAGAAGGGAAAAAGAGTAGCATTGCAACATTTAAAAAGAAAATGGATCCCAGACAATAAAAGAGGGAGGGGTAACGGAAAAGGCACACAGCCCATAAACGGAGCAACAGATAGAGAAAGGAGGAGAGGAGGGGGGAGTACAGGTGATGAACTGACTAAGGAGGGAGGGCGCATAAGCTCTTCGGGAAGCGTGCTCAAACCACACAAGGCTCCATAAACCTGGGTCTCTGCTTAGATACCTAGAAATCCCAAATCTGTCTACCATCCTCTCCATTAGAGGGGAGAGAGTAGAAATGGGATGGAACCCTGAAGAATCAGGAGAAAGACCACTTGGTTGTGAGGCTCAAGTGGTTAAATGAAGGGAAAGGTACAACAGGAAGAATCCAATCCACTATTGGTGACTGTTGAGCTCATTCCCAGGGAAACACGTATGCAACATTTGAAATGCACACATTTTAGTAGAATTTATATAGATATAAACACTTGGCCCATGATTAAAAAGTGTCACATGATCATAGGCTCTCGGGAGTCAGGCACAGGGTATCAAGTAGATACAGATACATAACTTCCATATCTAGACATGAGGCAACTGGGCCTAAGCACACAGACTTCTAGAGGCATTCATCCATTATGTGGACACTGAGCATCAACACCTATACATGTAACATTTAAATGCAGGTCCTCGGTAACCAAATGTATCTGTACTTAGACTTGGGCTTTTAGCTCCCAGACATACAGTATTCTGTGAACATAAGCACAAGAATCACATGGACATGGTCAGAGACCCTTAGCATCTAGACCTACAGCAAATATGAACCATGGCAAGGCTCCCTGATGCTGAGGTTTAACATTGCATAAGCACTCACCTACTCCTCAGACATCACTCAAACACAGAAGGACCCCCCTTGCTTCAGCCTGTTTTGCTCTGCCCTCCCTGGCATTGAACAGTAAATCCTTGACCTAAACTGCTCCACTCATCAG
Seq C2 exon
TTCCTCAACCACCCCAGAATTTCAATCTTGATCAACCAACGTGACAGAGACATTTTCCGCTACTTGACCAATCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000041096:ENSMUST00000044509:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.555 A=NA C2=0.074
Domain overlap (PFAM):
C1:
PF0095613=NAP=PU(29.9=21.4)
A:
NA
C2:
PF0095613=NAP=PD(13.0=45.0)
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:
GCCCCAGATGTTAGTTGGTCC
R:
AATTCTGGGGTGGTTGAGGAA
Band lengths:
358-1517
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