DreINT0047526 @ danRer10
Intron Retention
Gene
ENSDARG00000103340 | clic1
Description
chloride intracellular channel 1 [Source:ZFIN;Acc:ZDB-GENE-030131-3202]
Coordinates
chr19:17471885-17472231:+
Coord C1 exon
chr19:17471885-17471994
Coord A exon
chr19:17471995-17472105
Coord C2 exon
chr19:17472106-17472231
Length
111 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGGT
5' ss Score
6.36
3' ss Seq
TTTCTCTGTTTTGTGAGCAGGAA
3' ss Score
8.49
Exon sequences
Seq C1 exon
GCAGGAAGTGATGGTCAGAGTATTGGAAACTGCCCGTTTTCTCAGCGGCTTTTCATGGTCTTGTGGCTAAAAGGCGTAACTTTTAATGTGACCACAGTTGACATGAAGAG
Seq A exon
GTTGGTTTTTCTGTTGCATTGTGTATCTTGAGCAGTGCACCTTTTTAATTGAAATGATTAACATAGAAATTTCCACCCTGCCAACTTCCTCTTTCTCTGTTTTGTGAGCAG
Seq C2 exon
GAAACCAGAAATTCTAAAAGATCTGGCCCCTGGTGCTCAGCCTCCTTTCTTGCTATATGGTACAGAGGTGAAGACAGACACCAACAAAATAGAAGAGTTCTTGGAAGAAACACTCTGTCCTCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000103340:ENSDART00000158935:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.047
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PU(41.7=81.1)
A:
NA
C2:
PF134171=GST_N_3=PD(56.9=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGGAAGTGATGGTCAGAGT
R:
AGGAGGACAGAGTGTTTCTTCCA
Band lengths:
234-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]