HsaINT1007846 @ hg38
Intron Retention
Gene
ENSG00000213719 | CLIC1
Description
chloride intracellular channel 1 [Source:HGNC Symbol;Acc:HGNC:2062]
Coordinates
chr6:31730581-31732398:-
Coord C1 exon
chr6:31732217-31732398
Coord A exon
chr6:31731004-31732216
Coord C2 exon
chr6:31730581-31731003
Length
1213 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TCTCCTCTCCCCATCCTCAGGTG
3' ss Score
12.16
Exon sequences
Seq C1 exon
ATCTGGAGAAGGGACTCCTGAAAGCCCTGAAGGTTTTAGACAATTACTTAACATCCCCCCTCCCAGAAGAAGTGGATGAAACCAGTGCTGAAGATGAAGGTGTCTCTCAGAGGAAGTTTTTGGATGGCAACGAGCTCACCCTGGCTGACTGCAACCTGTTGCCAAAGTTACACATAGTACAG
Seq A exon
GTGTGTGGTTATTGCGGGAGGAGAGGATGACCACTGGAGTGGCCCTTTAAGGAGCTCCCACATGGGCTTCCCCTGACAACCACTCTAAAGACGATTTCTTTCTTAGGGTGGTTTTCATAAATTGCTACCAATGGCAGACCCCACCCCAGTCCTTTGCAGCAGTCATTGCTAACAAGACCACTGCTTGAGATAATTATATTCCATGATGTAAGTCATGGGTGCAAACAGACTAGCAAAGAGGAATACATCCCAGTATTACTTTTGAAGAATGCTCTTCCTGTCTCGGTATCACTGCCAAATTCCCAGATTAGACAGAGCAGGCTTTTCCTAAAGTCAAAGCTTTAACTTTCTTTATAACTTCAGTCTTCACTTCCTCTTGTGGAAGATCAAAACTGCTGGTTCCCATGTTTTTGTCATAGTCTCAAAGCTATGGTTTAGTTTGTGCAACATGGGCCTGACATCAGTCTGCCACACAACTATGTAGTGAACATCTGTGTACTAAGCATTGAAAGATACACAAGTGTATGGTGACTGGGCCTTGCTCTCAAAGGGTTGAAATCTGAGACAATAAAATATTCACATGAAAGTTAAGAATATATGATGAAAAGTCAGATGGGCCGGGCGTGGTGGCTCACGCCTATAATCCCAACACTTTGGGCGGCCAAGGCTGGTGGACCACCTGAGGTTAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAATTACAAAAATTAGCCGCACATGGTGGTGGGCACCTGTAATCACAGCTATTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCAAGATCGCGCCATTGCACTCCAGCCTGGGTGACAGCAAGACTCCATCTCAAAAAAAAAAAAGTCTGATGAAAAATATAGAGACAAAAGTCACCTGTGTCAGTGCCTGAAGTGGTATAGGGGGAAAAAGTCACTGTGGAAATTCAAGAGGAGAATTTTATAAGTAAATTATATCTCAAGTTTTAAAAACTCAGGAAAAATGGCTGGTTATTAAAAGCCAGGATTTCAGTAAGTGAGAAGGAAGGCTAACGACAGTACAAGACAGTGAGGAGTTGAGCTGGTTTTATCATGTCGGCCTGGGGAGAAGGGAAAGCCAAGGTGGCTTCCCTGGGTCTAACATGTTGGTCCCTCTCCTCTCCCCATCCTCAG
Seq C2 exon
GTGGTGTGTAAGAAGTACCGGGGATTCACCATCCCCGAGGCCTTCCGGGGAGTGCATCGGTACTTGAGCAATGCCTACGCCCGGGAAGAATTCGCTTCCACCTGTCCAGATGATGAGGAGATCGAGCTCGCCTATGAGCAAGTGGCAAAGGCCCTCAAATAAGCCCCTCCTGGGACTCCCTCAACCCCCTCCATTTTCTCCACAAAGGCCCTGGTGGTTTCCACATTGCTACCCAATGGACACACTCCAAAATGGCCAGTGGGCAGGGAATCCTGGAGCACTTGTTCCGGGATGGTGTGGTGGAAGAGGGGATGAGGGAAAGAAATGGGGGGCCTGGGTCAGATTTTTATTGTGGGGTGGGATGAGTAGGACAACATATTTCAGTAATAAAATACAGAATAAAAATCAAGTGTTTTTACGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000213719:ENST00000375784:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(65.9=100)
A:
NA
C2:
PF134101=GST_C_2=PD(25.3=42.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTGGATGGCAACGAGCTCA
R:
ACAAGTGCTCCAGGATTCCCT
Band lengths:
350-1563
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains