HsaALTA1056756-2/4 @ hg38
Alternative 3'ss
Gene
ENSG00000213719 | CLIC1
Description
chloride intracellular channel 1 [Source:HGNC Symbol;Acc:HGNC:2062]
Coordinates
chr6:31732233-31733961:-
Coord C1 exon
chr6:31733836-31733961
Coord A exon
chr6:31732330-31732332
Coord C2 exon
chr6:31732233-31732329
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
CTTAACATCCCCCCTCCCAGAAG
3' ss Score
5.84
Exon sequences
Seq C1 exon
GCGGACCGAGACAGTGCAGAAGCTGTGCCCAGGGGGGCAGCTCCCATTCCTGCTGTATGGCACTGAAGTGCACACAGACACCAACAAGATTGAGGAATTTCTGGAGGCAGTGCTGTGCCCTCCCAG
Seq A exon
AAG
Seq C2 exon
AAGTGGATGAAACCAGTGCTGAAGATGAAGGTGTCTCTCAGAGGAAGTTTTTGGATGGCAACGAGCTCACCCTGGCTGACTGCAACCTGTTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213719-20-22,20-21,20-20,20-18-2/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.235
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(57.7=95.3)
A:
NA
C2:
PF134101=GST_C_2=FE(65.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTCTGGAGGCAGTGCTGTG
R:
TGAGCTCGTTGCCATCCAAAA
Band lengths:
99-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains