HsaINT0171577 @ hg19
Intron Retention
Gene
ENSG00000166157 | TPTE
Description
transmembrane phosphatase with tensin homology [Source:HGNC Symbol;Acc:12023]
Coordinates
chr21:10951266-10952963:-
Coord C1 exon
chr21:10952913-10952963
Coord A exon
chr21:10951428-10952912
Coord C2 exon
chr21:10951266-10951427
Length
1485 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TATTTATTTGTTTATTTTAGACT
3' ss Score
8.6
Exon sequences
Seq C1 exon
CAGCAAGATTAAGAAAATTGTGCATTCAATTGTATCATCCTTTGCATTTGG
Seq A exon
GTATGTGAGACATAGAAAACACCATGTATTAAATATATCTGAGACTTGGCTGGGCACGGTGGCTCACACCTGTAATCCCAGCACCCTGGGAGGCCGAGGCGGGCGGATCACATGAAGTCAGGAGTTCAAGACCAGCCTGGCTAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAAGCATAATGGTGGGTGCCTATAATCCCAGCTACTCAGGAGGCTGAGGCAGAAGAATCGCTTGAACCGAGGAGGCATAGATTGCAGTGAGCTGAAATTGCACCATTGCACCGCAGCCTTGGCGACACAGCAAGACTCCATGTAAAAAAAAAAAAAAAAAAAAAGAAAAGAAAATATATGAGTCTCATATATATCTATATATACATATATATATATGAGACTTAATACTTCAATGAGAAATACTGAAATAAAATAACAAAAAAGCATTTCCACTGTCCATCAGTTGCTAAGTAGCCATGTGCCCCATCTAATGTAATCTAATTTATCATGGAATTTTGGTTTAAGCTGGACATTAAGAATTGCAAATAAATGGCTTTTGCCTAAGATTAATTGTAATATATTAATATTGTTTTTCTTCCATCTGCAAAAGTAACATTAATGAAAATCAAATGTTAAAATTCTATAATTATTAGTAAAGTGTTTTATTAGTACCTTATACATCAGGAATTACTCTTTAATTCTGGAAACAATTTACTTAGACTCTTCTCTACATAAGAGTAAGATTTCATACTATGATATAGATTTATACGATATAATTGTTTCCTTTTGAATTAATAATATTTGAATTTGAGCTGCAAGTTTTTAAAAAAGTACTTCAAAGACTAATTCACCTTTATAGACTAGGCAAATAGTCTAATCAATTTATGGAGAATGTATTTAGAATATGTAACAGCAAGTGGCAGGAGGTACTTTAGAGTTCAAGACTCATGTGCCCATCACTCTGCTAGAAGCACCCATAAATATGAAATCATGTACTTGTTGAAAATGTCACTGATGAAAAATCTTGGTCTTTTAAGAGCTTATGTTACTCATGCTTTCATTTGGTTTTTATTAATAAATTCTTTAGAATTATCCAGATTAATGAGGGTTTATTTTTTATGAGAAATTGGTATAAACTTCTTATGAAATTCGCAAATTTTAAGAAGAGTTTGTAAACAGACAGGTGATTTTAATTCAGTTTTACTTTTCTCTCTTGAGGTGTTGGTCTGATGTGTTTACTATAATATCTTGTGAAGTGGTTTGGTGAGAATTTTGTTTATTAAGAACTGCTTCTATTGGGTGAAAACAGTGATTTTTCTGAGATTCTAAGGCATTACAGTTTTTCCTGCCACTGGGCAGCTTAATACTAAATAATAACATTTTGGTACCTGATCAGTGGCTTAAATATAGTATAGCTACAGGGACAAATGCCCCTTTATCTTTGCATTTATTTATTTATTTATTTATTTGTTTATTTTAG
Seq C2 exon
ACTATTTGGAGTTTTCCTGGTCTTACTGGATGTCACTCTCATCCTTGCCGACCTAATTTTCACTGACAGCAAACTTTATATTCCTTTGGAGTATCGTTCTATTTCTCTAGCTATTGCCTTATTTTTTCTCATGGATGTTCTTCTTCGAGTATTTGTAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166157-TPTE:NM_199261:9
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:
PF059157=DUF872=FE(18.7=100)
A:
NA
C2:
PF0052026=Ion_trans=PU(18.3=38.2)
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:
CAGCAAGATTAAGAAAATTGTGCAT
R:
ACAAATACTCGAAGAAGAACATCCA
Band lengths:
207-1692
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)