HsaINT0036336 @ hg19
Intron Retention
Gene
ENSG00000159212 | CLIC6
Description
chloride intracellular channel 6 [Source:HGNC Symbol;Acc:2065]
Coordinates
chr21:36080998-36081836:+
Coord C1 exon
chr21:36080998-36081104
Coord A exon
chr21:36081105-36081654
Coord C2 exon
chr21:36081655-36081836
Length
550 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
TTCTTGCCCTTCTGTTTTAGTTC
3' ss Score
10.6
Exon sequences
Seq C1 exon
GTATCCCAAGCTGGGGACCCAACATCCCGAATCTAATTCCGCAGGAAATGACGTGTTTGCCAAATTCTCAGCGTTTATAAAAAACACGAAGAAGGATGCAAATGAGA
Seq A exon
GTGAGTACCTCCCATCCTCCTGTTTTGTTTCAACACAGACTTGAGTCTTAGCATGGCGGCCCATACGCTCCTGGGGTATTCCCATCTATTTCCCAGTGGGTAGAGAAGTGAGTCTGGAGCTACAGAAAAAGTGCCTCCAACTTTGAATCTGCACGTGGGCTTCAAGAGATGAATGCTTCTTTTGAGGCTGGGAACTCAGAAAACAACATTTTTAGGGAAAATAGTCATCACCCAGGTGTTCCGGACACACCATGGGAATCATGTTCAATGATGTTTCTGCCAGTCCACGTCTCCCCACAGGCTTTCCATAAGTATTTTTGAATAAATAAATCACTTCTAGAAGGAGCAATATTGTGTAGACAGCAGTGTGATTTTCCAGGGAGGAGTGAGCCCTTTATTCAGATATTCTACATCCACCTGCTGCCTTCCCAGCACCCATTGCTTGCTGGCCACATCTCAGCGAGGAAGGGAAGCAAACTCCATCACAGCTGGTGAAAAGTGACATGCACTTGCAAACCTCTCTTTGTGATTTCTTGCCCTTCTGTTTTAG
Seq C2 exon
TTCATGAAAAGAACCTGCTGAAGGCCCTGAGGAAGCTGGATAATTACTTAAATAGCCCTCTGCCTGATGAAATAGATGCCTACAGCACCGAGGATGTCACTGTTTCTGGAAGGAAGTTTCTGGATGGGGACGAGCTGACGCTGGCTGACTGCAACCTCTTACCCAAGCTCCATATTATTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159212-CLIC6:NM_053277:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.243 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(17.5=48.6)
A:
NA
C2:
PF134101=GST_C_2=FE(58.3=100),PF075506=DUF1533=PU(72.9=57.4)
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:
GGGACCCAACATCCCGAATCT
R:
AATATGGAGCTTGGGTAAGAGGT
Band lengths:
270-820
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)