DreINT0047538 @ danRer10
Intron Retention
Gene
ENSDARG00000022995 | clic4
Description
chloride intracellular channel 4 [Source:ZFIN;Acc:ZDB-GENE-030326-3]
Coordinates
chr17:25455546-25455880:+
Coord C1 exon
chr17:25455546-25455671
Coord A exon
chr17:25455672-25455773
Coord C2 exon
chr17:25455774-25455880
Length
102 bp
Sequences
Splice sites
5' ss Seq
AAAGTTAGT
5' ss Score
4.24
3' ss Seq
GTGTGTGTGTGTTTATTCAGGTA
3' ss Score
10.36
Exon sequences
Seq C1 exon
AAAACCAGCTGATCTGCAAAATCTGGCTCCAGGAACCCATCCTCCCTTCATCACCTTTAATGGAGAGGTCAAGACCGATGTCAACAAGATCGAAGAATACCTAGAGGACATCCTCTGCCCTCCAAA
Seq A exon
GTTAGTGAAAGAGTTTGCTTGTATATATGAGCTTCATGTGACTGTCAACATCCTGTGAATGGTTTTATTTCACTTATTTCTTGTGTGTGTGTGTTTATTCAG
Seq C2 exon
GTACTCTAAACTAGGTGCCAGACACCCAGAATCCAACACTGCAGGGATGGATATATTTGCCAAGTTTTCAGCATTTATCAAGAACTCTAAACCTGACGCCAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022995:ENSDART00000030691:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(56.3=93.0)
A:
NA
C2:
PF134101=GST_C_2=PU(21.3=62.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGATCTGCAAAATCTGGC
R:
TCATTGGCGTCAGGTTTAGAGT
Band lengths:
226-328
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]