HsaINT0036313 @ hg19
Intron Retention
Gene
ENSG00000155962 | CLIC2
Description
chloride intracellular channel 2 [Source:HGNC Symbol;Acc:2063]
Coordinates
chrX:154528098-154528458:-
Coord C1 exon
chrX:154528349-154528458
Coord A exon
chrX:154528224-154528348
Coord C2 exon
chrX:154528098-154528223
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTATTTTTAATAATCATAGAAA
3' ss Score
3.53
Exon sequences
Seq C1 exon
GCTGGAAGTGATGGAGAGAGTATTGGAAACTGTCCCTTTTGCCAACGCCTTTTCATGATCCTCTGGCTTAAAGGAGTTAAATTTAATGTGACAACTGTTGACATGACCAG
Seq A exon
GTAAGAGAAATCAGGACATGTTAAATTCTAGGAATTGAGATTGGTAGATACCAATAAAATATTGGTGTTTATTTAATGTGTACTTTATCTAGAGACCTAACTCTGCTTATTTTTAATAATCATAG
Seq C2 exon
AAAGCCTGAAGAACTAAAGGACTTAGCCCCAGGTACCAATCCTCCGTTCCTGGTGTATAACAAGGAGTTGAAAACAGACTTCATTAAAATTGAGGAGTTTTTAGAACAAACCCTGGCTCCTCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000155962-CLIC2:NM_001289:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF134091=GST_N_2=PU(29.3=73.0)
A:
NA
C2:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(16.0=53.5)
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:
GCTGGAAGTGATGGAGAGAGT
R:
TGGAGGAGCCAGGGTTTGTTC
Band lengths:
234-359
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)