MmuINT0164407 @ mm9
Intron Retention
Gene
ENSMUSG00000031481 | Tpte
Description
transmembrane phosphatase with tensin homology [Source:MGI Symbol;Acc:MGI:2446460]
Coordinates
chr8:23456291-23456581:+
Coord C1 exon
chr8:23456291-23456372
Coord A exon
chr8:23456373-23456492
Coord C2 exon
chr8:23456493-23456581
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-Tpte:NM_199257:20
Average complexity
IR-S
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:
PF0078215=DSPc=FE(21.6=100)
A:
NA
C2:
PF0078215=DSPc=FE(24.0=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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: