HsaINT0036334 @ hg19
Intron Retention
Gene
ENSG00000159212 | CLIC6
Description
chloride intracellular channel 6 [Source:HGNC Symbol;Acc:2065]
Coordinates
chr21:36079578-36080367:+
Coord C1 exon
chr21:36079578-36079687
Coord A exon
chr21:36079688-36080241
Coord C2 exon
chr21:36080242-36080367
Length
554 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TGCTGTTTCCTCCCACCTAGGAA
3' ss Score
9.45
Exon sequences
Seq C1 exon
GCTGGTTATGATGGTGAGAGTATCGGAAATTGCCCGTTTTCTCAGCGTCTCTTTATGATTCTCTGGCTGAAAGGCGTTATATTTAATGTGACCACAGTGGACCTGAAAAG
Seq A exon
GTAAGACAAGGCGTCTGCCTTACTGAAATAACTGTACCTAGTTCTCTGCACACACACACACACACACACACACACACACACCTGAGGCCAACGGTGCTGCATGGGCACGTCCATCCTCAGTCGGAGTCTGAACTGAAGCCCACATGTGGGCCAAGCAGTCATGACAGGGTCGGCTGGGCTGGAGTCAGGAAGGAGGAGGAGTTGGGGGTGCCGTGAAGAACCTGCTTCTCCAGTTGCTGGTCAGCTGTGACTCTCCCAAGCCTGTCTGAGCACCATCCCTGGCTGATAACACTGGGGAGAGTTAACTTTTTCACCTCTGTTTGTTGATATGCCCCTTTGTGCTCCGTATTCACAAAGGGGCACCTCAACAAGCCCATCATTTGTTAATGAATGCCTTTACTTTCATCGCCAGCAAGACATTTTCATAAACCCACCATCTACTTTGCAGTTCTCAAGAGTTGCTTCTCTTAAACTGGTGAGGACGCGGCTAAGCCCTGGAAATGAGTCCAGATTCTCACGGTGGCCCATAAACACTGCTGTTTCCTCCCACCTAG
Seq C2 exon
GAAACCCGCAGACCTGCAGAACCTGGCTCCCGGAACAAACCCTCCTTTCATGACTTTTGATGGTGAAGTCAAGACGGATGTGAATAAGATCGAGGAGTTCTTAGAGGAGAAATTAGCTCCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159212-CLIC6:NM_053277:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.014 A=NA C2=0.419
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.1=81.1)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGTTATGATGGTGAGAGT
R:
CTCGGGGGAGCTAATTTCTC
Band lengths:
236-790
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)