HsaINT0036321 @ hg19
Intron Retention
Gene
ENSG00000169583 | CLIC3
Description
chloride intracellular channel 3 [Source:HGNC Symbol;Acc:2064]
Coordinates
chr9:139889060-139889557:-
Coord C1 exon
chr9:139889382-139889557
Coord A exon
chr9:139889292-139889381
Coord C2 exon
chr9:139889060-139889291
Length
90 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGC
5' ss Score
5.28
3' ss Seq
CCCCGCGATCCTGCCCGCAGACG
3' ss Score
10.82
Exon sequences
Seq C1 exon
CCCTGTACCAGCAGCTGCTGCGCGCCCTCGCCAGGCTGGACAGCTACCTGCGCGCGCCCCTGGAGCACGAGCTGGCGGGGGAGCCGCAGCTGCGCGAGTCCCGCCGCCGCTTCCTGGACGGCGACAGGCTCACGCTGGCCGACTGCAGCCTCCTGCCCAAGCTGCACATCGTCGAC
Seq A exon
GTGAGCACGGAAGGTGGGCGGGCGGGAGGGTGACCGCGGCGCGCCTGGGGGACGGCAGGTCCTGACCGCGCCCCGCGATCCTGCCCGCAG
Seq C2 exon
ACGGTGTGCGCGCACTTCCGCCAGGCGCCCATCCCCGCGGAGCTGCGCGGCGTACGCCGCTACCTGGACAGCGCGATGCAGGAGAAAGAGTTCAAATACACGTGTCCGCACAGCGCCGAGATCCTGGCGGCCTACCGGCCCGCCGTGCACCCCCGCTAGCGCCCCACCCCGCGTCTGTCGCCCAATAAAGGCATCTTTGTCGGGAGTGAGGGTGTCCTGACATCTGAAGGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169583-CLIC3:NM_004669:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(43.3=100)
A:
NA
C2:
PF134101=GST_C_2=PD(17.2=43.4)
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:
CTTCCTGGACGGCGACAGG
R:
TGCGGACACGTGTATTTGAACT
Band lengths:
177-267
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)