MmuINT0164407 @ mm10
Intron Retention
Gene
ENSMUSG00000031481 | Tpte
Description
transmembrane phosphatase with tensin homology [Source:MGI Symbol;Acc:MGI:2446460]
Coordinates
chr8:22345819-22346109:+
Coord C1 exon
chr8:22345819-22345900
Coord A exon
chr8:22345901-22346020
Coord C2 exon
chr8:22346021-22346109
Length
120 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
AATCTTATATTTGAAATCAGGGA
3' ss Score
3.92
Exon sequences
Seq C1 exon
GTGAGAGAGCTTATGACCCTAAGCACTTCCACTACAGGGTCCGCAGAATCATGATTGATGATCATAATGTCCCCACTCTTGA
Seq A exon
GTGAGTCTTATGCCACACTGGCTGTCAGAAAAGGGCTAATTACTTTGGGCTGGGTGTTTTAGAGAAGTAGTGATTTGGAAACAATTTCATTGAATGAAAAAATCTTATATTTGAAATCAG
Seq C2 exon
GGAAATGTTGTTGTTCTCCAAGGAAGTAAATAATTGGATGGCTCAAGATCCTGAAAATGTTGTCGCGATTCACTGTAAGGGAGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031481:ENSMUST00000211497:20
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=0.000
Domain overlap (PFAM):
C1:
PF145661=PTPlike_phytase=FE(18.4=100)
A:
NA
C2:
PF145661=PTPlike_phytase=FE(20.4=100)
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:
GTGAGAGAGCTTATGACCCTAAGC
R:
TTTTCCTCCCTTACAGTGAATCGC
Band lengths:
170-290
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