HsaINT0171563 @ hg19
Intron Retention
Gene
ENSG00000166157 | TPTE
Description
transmembrane phosphatase with tensin homology [Source:HGNC Symbol;Acc:12023]
Coordinates
chr21:10933852-10934120:-
Coord C1 exon
chr21:10934039-10934120
Coord A exon
chr21:10933941-10934038
Coord C2 exon
chr21:10933852-10933940
Length
98 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
AATCTTAAACTTGAAATCAGTCA
3' ss Score
-0.35
Exon sequences
Seq C1 exon
GTGAAAGAGCTTACGATCCTAAGCACTTCCATAATAGGGTCGTTAGAATCATGATTGATGATCATAATGTCCCCACTCTACA
Seq A exon
GTAAGTTTTATGCTAAATTGACTATCAGAAGAGGGCTAAATATATTGGGCTTGATTTTTTGAAAATATTTTAACTAAAAATCTTAAACTTGAAATCAG
Seq C2 exon
TCAGATGGTGGTTTTCACCAAGGAAGTAAATGAGTGGATGGCTCAAGATCTTGAAAACATCGTAGCGATTCACTGTAAAGGAGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166157-TPTE:NM_199261:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF060189=CodY=FE(29.3=100),PF0078215=DSPc=FE(21.3=100)
A:
NA
C2:
PF060189=CodY=FE(32.6=100),PF0078215=DSPc=FE(23.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAGAGCTTACGATCCTAAGCAC
R:
TGCCTCCTTTACAGTGAATCGC
Band lengths:
167-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)