HsaALTA0001915-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000112782 | CLIC5
Description
chloride intracellular channel 5 [Source:HGNC Symbol;Acc:13517]
Coordinates
chr6:45881982-45909390:-
Coord C1 exon
chr6:45909284-45909390
Coord A exon
NA
Coord C2 exon
chr6:45881982-45882146
Length
0 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTTTTACTCTTTCATGCCAGCTC
3' ss Score
7.84
Exon sequences
Seq C1 exon
GTACCCCAAACTGGCTGCAAAACACCGGGAATCCAACACAGCGGGCATCGACATCTTTTCCAAGTTTTCTGCCTACATCAAAAATACCAAGCAGCAGAACAATGCTG
Seq A exon
NA
Seq C2 exon
CTCTTGAAAGAGGCCTAACCAAGGCTCTAAAGAAATTGGATGACTACCTGAACACCCCTCTACCAGAGGAGATTGACGCCAACACTTGTGGGGAAGACAAGGGGTCCCGGCGCAAGTTCCTGGATGGGGATGAGCTGACCCTGGCTGACTGCAATCTGTTGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112782-5-14,5-13-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.140 A=NA C2=0.104
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(20.6=59.5)
A:
NA
C2:
PF134101=GST_C_2=FE(56.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAAAACACCGGGAATCCAA
R:
AACAGATTGCAGTCAGCCAGG
Band lengths:
252-390
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)