HsaINT0036335 @ hg19
Intron Retention
Gene
ENSG00000159212 | CLIC6
Description
chloride intracellular channel 6 [Source:HGNC Symbol;Acc:2065]
Coordinates
chr21:36080242-36081104:+
Coord C1 exon
chr21:36080242-36080367
Coord A exon
chr21:36080368-36080997
Coord C2 exon
chr21:36080998-36081104
Length
630 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGC
5' ss Score
8.99
3' ss Seq
CCAATTTTGAACTTTTCAAGGTA
3' ss Score
6.15
Exon sequences
Seq C1 exon
GAAACCCGCAGACCTGCAGAACCTGGCTCCCGGAACAAACCCTCCTTTCATGACTTTTGATGGTGAAGTCAAGACGGATGTGAATAAGATCGAGGAGTTCTTAGAGGAGAAATTAGCTCCCCCGAG
Seq A exon
GTAGGCCTCAGAAAACCAGTGTTCATAACTTGATTGTCACTTTCCCCCACTAGTAGTCAGTTCTAAAGCTCTGGGCAGTGTGTGTGTGTGTGGTTTTCTGCAGCCCACGGTGCTCACTTCCTTAATCATAACCCTGGTGTAACCAGATTAGAGTTCGGGGACCTGGGTTTCATTGTGCTGCACCTGCAGCTTGGCAATCACAGTTTGATGGCAGGAAGTGGGAGGAGATGGGTCCAGGGTGGGTGGTTGGCTGTATCCTAGACACCCTGCTGGAAGCTATGGAGTATGTGTTAGGAAGAAGTATCATGGATTTTTGGACCTCGGGGGAGCTATTTCTACTCCATCCCCTTCGTTTTACTAGGGAAGCACCTGAGACCAGCAAGGCCAGGTGGGGTCCTGTGTCCCAGAACTGGCCACTGCCAGGAAACAGCAACAATCCAAACCTCTCCGTCCAGTGCCATTCTCCTAGATGTTGTTACTTCCCAACCTTTGAGAGGAAAAGGGTCAGGAAAACGTTGAAGGAAAGCTTTTCATTTTTATGCCCAGAGAAAGCTGTTTTTCTCCATTGTATAGTATTATCTTCACTAAAACATCACTTGTCTGTGATCCTCCAATTTTGAACTTTTCAAG
Seq C2 exon
GTATCCCAAGCTGGGGACCCAACATCCCGAATCTAATTCCGCAGGAAATGACGTGTTTGCCAAATTCTCAGCGTTTATAAAAAACACGAAGAAGGATGCAAATGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159212-CLIC6:NM_053277:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.419 A=NA C2=0.243
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(17.5=48.6)
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:
AGACCTGCAGAACCTGGCTC
R:
TCTCATTTGCATCCTTCTTCGTGT
Band lengths:
224-854
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)