HsaINT0021544 @ hg19
Intron Retention
Gene
ENSG00000134779 | C18orf10
Description
tubulin polyglutamylase complex subunit 2 [Source:HGNC Symbol;Acc:24561]
Coordinates
chr18:34378412-34380274:-
Coord C1 exon
chr18:34380161-34380274
Coord A exon
chr18:34378573-34380160
Coord C2 exon
chr18:34378412-34378572
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-C18orf10:NM_015476:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093465=SMI1_KNR4=FE(24.5=100)
A:
NA
C2:
PF093465=SMI1_KNR4=PD(18.5=51.9)
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
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)