HsaINT0134343 @ hg38
Intron Retention
Gene
ENSG00000163629 | PTPN13
Description
protein tyrosine phosphatase, non-receptor type 13 [Source:HGNC Symbol;Acc:HGNC:9646]
Coordinates
chr4:86750470-86751124:+
Coord C1 exon
chr4:86750470-86750887
Coord A exon
chr4:86750888-86751026
Coord C2 exon
chr4:86751027-86751124
Length
139 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
CCTTCCTTTTCCCTCTTCAGTTC
3' ss Score
11.39
Exon sequences
Seq C1 exon
AGAGAGCTTCGTTTAGGAGCCTGAATCTCCAAGCAGAGTCTGTTAGAGGATTTAATATGGGACGAGCAATCAGCACTGGCAGTCTGGCCAGCAGCACCCTCAACAAACTTGCTGTTCGACCTTTATCAGTTCAAGCTGAGATTCTGAAGAGGCTATCCTGCTCAGAGCTGTCGCTTTACCAGCCATTGCAAAACAGTTCAAAAGAGAAGAATGACAAAGCTTCATGGGAGGAAAAGCCTAGAGAGATGAGTAAATCATACCATGATCTCAGTCAGGCCTCTCTCTATCCACATCGGAAAAATGTCATTGTTAACATGGAACCCCCACCACAAACCGTTGCAGAGTTGGTGGGAAAACCTTCTCACCAGATGTCAAGATCTGATGCAGAATCTTTGGCAGGAGTGACAAAACTTAATAA
Seq A exon
GTAAGAACATATTAACTAACCCAATTACATATTTGTAAATTCTACATTTCATACGTTTCTTTTTGTTATGACATTTTATTATTTTCACCATATTTTTTTACATTAACACTTCCCTCCTACCTTCCTTTTCCCTCTTCAG
Seq C2 exon
TTCAAAGTCTGTTGCGAGTTTAAATAGAAGTCCTGAAAGGAGGAAACATGAATCAGACTCCTCATCCATTGAAGACCCTGGGCAAGCATATGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000163629:ENST00000427191:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.476 A=NA C2=0.871
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:
ACCATGATCTCAGTCAGGCCT
R:
GCCCAGGGTCTTCAATGGATG
Band lengths:
243-382
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