HsaALTA0001915-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000112782 | CLIC5
Description
chloride intracellular channel 5 [Source:HGNC Symbol;Acc:HGNC:13517]
Coordinates
chr6:45914245-45941653:-
Coord C1 exon
chr6:45941547-45941653
Coord A exon
chr6:45914410-45914547
Coord C2 exon
chr6:45914245-45914409
Length
138 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ATTGTGTTAATGGTTTCCAGGTA
3' ss Score
6.92
Exon sequences
Seq C1 exon
GTACCCCAAACTGGCTGCAAAACACCGGGAATCCAACACAGCGGGCATCGACATCTTTTCCAAGTTTTCTGCCTACATCAAAAATACCAAGCAGCAGAACAATGCTG
Seq A exon
GTATTCTGCAGTGTGTGGGGAGCTGGCAGTGTGATGAAGGGGACAGGATTCTAGATGAGCTACTCCACTCTGAAGACCCTATGACTGTATCCACTGGCAAGAAGTTTGAATAAAGGCCCTTTTACTCTTTCATGCCAG
Seq C2 exon
CTCTTGAAAGAGGCCTAACCAAGGCTCTAAAGAAATTGGATGACTACCTGAACACCCCTCTACCAGAGGAGATTGACGCCAACACTTGTGGGGAAGACAAGGGGTCCCGGCGCAAGTTCCTGGATGGGGATGAGCTGACCCTGGCTGACTGCAATCTGTTGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112782-12-19,12-18-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.141 A=NA C2=0.115
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 Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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
- The Cancer Genome Atlas (TCGA)
- Autistic and control brains
- Pre-implantation embryo development