HsaINT0036320 @ hg19
Intron Retention
Gene
ENSG00000169583 | CLIC3
Description
chloride intracellular channel 3 [Source:HGNC Symbol;Acc:2064]
Coordinates
chr9:139889382-139889744:-
Coord C1 exon
chr9:139889638-139889744
Coord A exon
chr9:139889558-139889637
Coord C2 exon
chr9:139889382-139889557
Length
80 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
CCGCGCCGCCTGCCCCCTAGCCC
3' ss Score
5.98
Exon sequences
Seq C1 exon
CTTCCCCAGCCTGGCGCCTCGTTACAGGGAGTCCAACACCGCCGGCAACGACGTTTTCCACAAGTTCTCCGCGTTCATCAAGAACCCGGTGCCCGCGCAGGACGAAG
Seq A exon
GTGAAGCGGGGTCAGGGGGTCGGGTGCCCAGGCGGGAGGGCGCCCTGGGCCTGGTCCTCACCGCGCCGCCTGCCCCCTAG
Seq C2 exon
CCCTGTACCAGCAGCTGCTGCGCGCCCTCGCCAGGCTGGACAGCTACCTGCGCGCGCCCCTGGAGCACGAGCTGGCGGGGGAGCCGCAGCTGCGCGAGTCCCGCCGCCGCTTCCTGGACGGCGACAGGCTCACGCTGGCCGACTGCAGCCTCCTGCCCAAGCTGCACATCGTCGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169583-CLIC3:NM_004669:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.189 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(26.9=100)
A:
NA
C2:
PF134101=GST_C_2=FE(43.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCACAAGTTCTCCGCGTTC
R:
CCTGTCGCCGTCCAGGAAG
Band lengths:
180-260
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
- 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)