HsaINT0182092 @ hg19
Intron Retention
Gene
ENSG00000136918 | WDR38
Description
WD repeat domain 38 [Source:HGNC Symbol;Acc:23745]
Coordinates
chr9:127616484-127618029:+
Coord C1 exon
chr9:127616484-127616604
Coord A exon
chr9:127616605-127617912
Coord C2 exon
chr9:127617913-127618029
Length
1308 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
GACTGTGGCCACCCGCCCAGGCC
3' ss Score
3.07
Exon sequences
Seq C1 exon
GTCAACTCTTCTGCCTTCTCCCCTGATGGCCAGATGCTGCTCACAGGCTCAGAAGATGGCTGCGTGTATGGCTGGGAGACCCGGAGTGGGCAGCTGCTGTGGAGGCTGGGTGGCCACACAG
Seq A exon
GTGGGGCTCCCACACCTGGCCGGGAAGACCGAGGCACAAGGGTCTGGCATGCTGCAGAGCTGACTGCAGTGACCTCCGATGAGCTGGGCACGGGTGCAAGGCAGGGCTGGGCAGGTTGGGAGATGGGACGAGATATCTGGGTGCTGGGGCTTAGACTCTAACAGGCCTGGACTCAGCCTTCTTTAAAAACACACACACACACACACATACATACAAAAACAACTGTAATGTAACACAGTAATACTTACTGTTGCATCCTTTTTTGTGTGTGACAGAGTCGCTCTCTGTCACCCAGGCTGGACAACCTCGGCTCACTGCAACCCCCGCCTCCTGGGTTCAAGCAATTCTCTGCCTCAGCCTCTCGAGTAGCTGGAATTATAGACACCTGCTACCACACCCAGCTAATTTTTTTGTATCTTTAGTAGAGACGGGGTTTCACCATCTTGGCCAGGCTGGTCTTGAACTCCTGACCTCGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTAAAGGCGTGAGCCACTGCACCGGCTTTGTTGTGTCCATTTTTAAGTGTACAGTTCAGAGAATCCAGTACCTTCACATTGTCGTGACACCAATCTCCAGAGCTCTTCCTCTTGCAGAACTGAACCTCTGTCCCCACTAAACAAGTCCCCAATCTCCCTCCTCCCAGCCCCTGACAACCACTGTTTTTCTTTTTGTCTCGATGAATCTGACCTCTCTGGGTGCCTCTAAGTGGAGTCACACAGTATTTGTCTTTTTGTGACTGGCTTATTTCACTTAGCATGATGTACTTAAGGTTCAGCCATGTCGTGCTTACCACTGTTTTGACTGTGATCTTGGTCAAGTCCTGTCACCTCGCTGAGCCATTTCCACTGGCACGATGCAAGCAAAGTACCTAGCACACAGTAAGGACTCAATAGATATAACTATTGTAATTATTATTCAGGAGACAAGAAAAAATATCAGGCAATTACAGGCAGTCTGGTTAATGCTGCAAGGAGGGAAAATCAGGGGCTGGAGCTCAAAGGAGGCAGTGAACCTAGGCAGCGGTTGTTAGGGCAAGTTTCTGGGAGGTCCCTACTTTGACTTGGGGATTGATTTTTCAGATGAGCACTGAGGTTGGGTGCTCCAAGGCTGACAGCCCAGCCCAGGCCAAGGCATGGAAATCCAGGCATTTCTGGGAAGCTGGAGTTTGGGTGAGGGGAGGCTGGCGACGAGGCTGGAGAAATTAGCAAGGATTGGACTGCGTGGGCAGAAGTGGCGGGCAGTGCTCTGTCCCCTGACTGTGGCCACCCGCCCAG
Seq C2 exon
GCCCCGTGAAGTTCTGCCGCTTCTCCCCTGATGGCCACCTCTTCGCCAGCGCCTCCTGTGACTGCACTGTCCGCCTGTGGGATGTGGCAAGAGCGAAGTGTCTGCGGGTCCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136918-WDR38:NM_001045476:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(65.8=61.0),PF0040027=WD40=PU(28.2=26.8)
A:
NA
C2:
PF0040027=WD40=PD(69.2=67.5),PF146551=RAB3GAP2_N=PU(25.8=42.5),PF0040027=WD40=PU(20.5=20.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCAACTCTTCTGCCTTCTCCC
R:
CCTTCAGGACCCGCAGACA
Band lengths:
238-1546
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
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)