HsaINT0021544 @ hg38
Intron Retention
Gene
ENSG00000134779 | TPGS2
Description
tubulin polyglutamylase complex subunit 2 [Source:HGNC Symbol;Acc:HGNC:24561]
Coordinates
chr18:36798449-36800311:-
Coord C1 exon
chr18:36800198-36800311
Coord A exon
chr18:36798610-36800197
Coord C2 exon
chr18:36798449-36798609
Length
1588 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCCTTTGTCTTCTACTTCAGCAT
3' ss Score
8.89
Exon sequences
Seq C1 exon
CCAGTGATGATCAGCCAGAGAAGCCTCACTTTGACTCTCGCAGTGTGATATTTGAGCTGGATTCATGCAATGGCAGTGGGAAAGTTTGCCTTGTCTACAAAAGTGGGAAACCAG
Seq A exon
GTAAGAATTGTTTACAAGCGTGGTCCCGTAGTTTGGCTAGGGTCTTGCCTGACCTTGCTTGTCAGCCATGGCTCAGGAGACACATACCTCCTTGGCCTCTTGAGATGCTCCCAGGTTCCTTGTGTGTCCCAAACCCAAAAACCCCTTTGGTTCTCTCTGAGCATCACCCTTTGGGCTAATTATTAGTCCTTTTATCCATCTTCATTTGTGAGTTATTGCCAAATAGTTGATGAGATTAGAATATGGGAGTAAAAACTAAAAGAAATAGGCATTTTGTTAATAGACTCCTACAGCAAGTTCATGTACTAGATAAGCATCCAGAAAACACATTATCTTTTATACTTCTATATCTAGGCCAATTAACAGCAATAAAAACCTGAATTACTAGACCAAAGACCCCTGATGGGAAATTAAAAGCCTCTCTGCCCTCAAGCAGCAGCTGCCACCTAGCCCCCTAACAGCACTTCAGACCCCAGCCTAGGGACTGTGAAACTACAGAGCTGGACAATGGCAGCCCTCTTCAGCTAGCTGTCTGGTAGGGGTGAGAGGATACAGACACCAGGATTTACCTCTGGGGCAAGGAGAAATCATCCAGCCAGAGGAATTGTTGCAAAGTAGTCATGGAGCTGCATCTTGAACTGTGGGGTAGGAATTAGATACCGGGTGGGGAGGAGGATTTGGTGGAGTAAAAGAGACAAGGGAGCATCCAAGCAAAGGGACAAATGGGTAAAAGCCAAGCCATGGGAAAGTACAATTGATTTGTGGGGAATGACAATTCCAATTCAGTGGGCCACATGGTTCATGTAGGGGGTGAGGAGGAGATTAAGCTAGAAGGCTAATTGCTGTCTCTGATGCAGAGCTTTGAAAGCAAGCAAAGGAGTTTGGACATAATGTGGAAGACAGTGGGGAGCTAATGAAGGTTGTTTAGTAAAATGGCAGGGATCATGACTACCAGCAGTTTTGGCAAAGAAAGAGACTGGATGGATAATGGAGGGCACTTAGGGAGATATTATAGCTATCTAGACAGCAGAGGAAGTAAGATAGGCTTGAAGTAGTAAGAATGGAAAGTCACAAACTGGGAGGCAGGACATCACAGTATAGGCAAGACTCCCAGGAGTGAACTGGGCTAAGCTCCTTCATGGTGGTTTTTTGTGGCACTTTTTGTTTTTCATGGCACCGATAGAGACTTCTTCAAAAAAACCTAAGCCATTCAGTGTTTTTCTCTCTCAGGAAAGCTGAGACCACAGTATTCCGCCCCCCTACCGGGGGAGGGGAATGCTATGACACACAGAAAAGGAGTAGCTGCCTAGATAGCCTGACTGGACTTCCAGATGGTCAGAGACCAGCAGATAGATCAATCTACTGATCTAGCAAAAATTTGTAAGAGTATCAAAGGAACTAGTAAAGTGGCCACTAGAGAAGGAGACTGGAGGGTTAGAAGTGGGGCAGAAGGGGAACTTTTACTTTACATTTTCCATTCTCTCTGTTGGGATTTTTTTTTAAGGCCATGAGTATAACCTTTTACAGTTAAAAAGAAAAAACTGTTAAGCTATTCTTTATCTTTTACTTCCTTTGTCTTCTACTTCAG
Seq C2 exon
CATTAGCAGAAGACACTGAGATCTGGTTCCTGGACAGAGCGTTATACTGGCATTTTCTCACAGACACCTTTACTGCCTATTACCGCCTGCTCATCACCCACCTGGGCCTGCCCCAGTGGCAATATGCCTTCACCAGCTATGGCATTAGCCCACAGGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134779:ENST00000334295:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGTGATGATCAGCCAGAGA
R:
GCTAATGCCATAGCTGGTGAAG
Band lengths:
263-1851
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