HsaINT0036315 @ hg19
Intron Retention
Gene
ENSG00000155962 | CLIC2
Description
chloride intracellular channel 2 [Source:HGNC Symbol;Acc:2063]
Coordinates
chrX:154508438-154509357:-
Coord C1 exon
chrX:154509251-154509357
Coord A exon
chrX:154508620-154509250
Coord C2 exon
chrX:154508438-154508619
Length
631 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
3' ss Seq
CTATTACTTCATTGCCTCAGATT
3' ss Score
6.82
Exon sequences
Seq C1 exon
GTACCCTCACCTGAGTCCCAAGTACAAGGAGTCTTTTGATGTGGGCTGTAACCTCTTTGCCAAGTTTTCTGCATACATTAAGAATACACAAAAGGAGGCAAATAAGA
Seq A exon
GTAAGATACCTTTCTTTAAATCTCTATTTTTCTCTCACTCTTCATCTTCTCACTCAGCAAAAATAGAATTTTCCTGAATATATAGTATATTTTGGGGACTGGCCTAGTCTTCCCCTCATTCTCTATACTCTCCTCTGAAATTCCCTCGCATGAAGTTGTATTAGATTTAGAACTCAAGATTCAATATAGCTATTACCAACCATAGCTCAATTAGAATATTGACATACTAGGTGTGAACTAACTGCAGGACTGTGTACCTTTAAGGTTTCTTAAACTGTGGCACCTACCATTTCCCATGAACATTCTTAAATAGATTTATTATCCTCTGAGTCACAAGAACTGTGTTTTTTCTTTCACTTTCTAACTCTTCTGATCACTTTTCTTTCTTTCTTTTACTCTCCTGCCAATGCACCTCCCTAAGAAAAGCCCAAAAGATTAACACTCACTATTTCATCTTACTTTGTCTTATCAGTGAGTAGCTGAGCATTCTAAATAGTTAACTAGATATTGAAGAGCCAGTGTAAGTAGTATGTATAGATAGAGGTGTCTAAATGTGTGGAAAGCATATTTAGAATGTATTTAGTCAAAAGACAATACATTTACAAGTAACTCTATTACTTCATTGCCTCAG
Seq C2 exon
ATTTTGAAAAATCTCTGCTCAAAGAATTCAAGCGTCTGGATGACTACTTAAACACCCCACTTCTGGATGAAATTGATCCAGACAGTGCTGAGGAACCCCCAGTTTCCAGAAGACTATTCTTGGATGGGGACCAGCTAACACTGGCTGATTGTAGCTTGTTACCCAAGCTGAACATTATTAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155962-CLIC2:NM_001289:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.079
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(25.0=100)
A:
NA
C2:
PF134101=GST_C_2=FE(41.7=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:
GTACCCTCACCTGAGTCCCAA
R:
AATAATGTTCAGCTTGGGTAACAA
Band lengths:
286-917
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)