HsaALTA1056756-4/4 @ 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
chr6:31732330-31732692
Coord C2 exon
chr6:31732233-31732329
Length
363 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
TTAGCCAGTTGTGGTGGCAGGCA
3' ss Score
-0.12
Exon sequences
Seq C1 exon
GCGGACCGAGACAGTGCAGAAGCTGTGCCCAGGGGGGCAGCTCCCATTCCTGCTGTATGGCACTGAAGTGCACACAGACACCAACAAGATTGAGGAATTTCTGGAGGCAGTGCTGTGCCCTCCCAG
Seq A exon
GCACCTGTAATCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCATTTGAATCTAGGAGGCAGAGGTTGCAGTGAGCCGGGATCATGCCACTGCACTCCAGCCTGGGCAACGGAGCAAGACTCCGTCTAACATAAAATAAAATGTAAAGTGCTTAGAATAACACATAGAAAAGTAACTACATGAGTGTTAGCTATTATTATTTTGGACTCACCATTAGTATCCACCCCCAACGGGCCTTTTCGGACTATGTCAATCTTTTCCTGAAGTTCTAATCAGTTCCCTCTCTTGCACAGATCTGGAGAAGGGACTCCTGAAAGCCCTGAAGGTTTTAGACAATTACTTAACATCCCCCCTCCCAGAAG
Seq C2 exon
AAGTGGATGAAACCAGTGCTGAAGATGAAGGTGTCTCTCAGAGGAAGTTTTTGGATGGCAACGAGCTCACCCTGGCTGACTGCAACCTGTTGCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213719-20-22,20-21,20-20,20-18-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
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
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
GACCGAGACAGTGCAGAAGC
R:
CAACAGGTTGCAGTCAGCCAG
Band lengths:
215-578
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains