HsaINT0134378 @ hg38
Intron Retention
Gene
ENSG00000163629 | PTPN13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:HGNC Symbol;Acc:HGNC:9646]
Coordinates
chr4:86716530-86717117:+
Coord C1 exon
chr4:86716530-86716625
Coord A exon
chr4:86716626-86717023
Coord C2 exon
chr4:86717024-86717117
Length
398 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TCTTTTTCATTCATAATTAGTGA
3' ss Score
5.73
Exon sequences
Seq C1 exon
AACCAGTTCGAAGATACAAAACTTATCATGGTGATGTCTTTAGTACCTCCAGTGAAAGTCCATCTATTATTTCCTCTGAATCAGATTTCAGACAAG
Seq A exon
GTAGGAGGCATCTGAAACAAGCAAACTGTTTTTAAGAAACCACGATTATTATTATTTTCAATAGTGTTCAAATATTAATATAAATTGCCAGAAAGAATAATACTGTATAAAATTGAAAAATTTAAAAAAGCTGCTGGTTACTCAGTAGTAGTATTATAGAAACTAAATAGCAGTTTCTTCAAATAACGATGTAGTCCTTTTCATTACAGAGATAATAATTCATTGTCTTTAAAAGTAACATGATTTACCTCAAAAGAGTTTAATAACATTATGTCATTAATTTTGTTCTGTGGATTAGATTTGTACAACTCTATGTCTGCTAAGTGTTTGAGTTTTAAATGAAATTACTCTCATGTTTCTATCACCTGTGCCATTATTTCTTTTTCATTCATAATTAG
Seq C2 exon
TGAGAAGAAGTGAAGCCTCAAAGAGGTTTGAATCCAGCAGTGGTCTCCCAGGGGTAGATGAAACCTTAAGTCAAGGCCAGTCACAGAGACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163629:ENST00000427191:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.576 A=NA C2=0.969
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AACCAGTTCGAAGATACAAAACTT
R:
TCTCTGTGACTGGCCTTGACT
Band lengths:
185-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development