DreINT0047533 @ danRer10
Intron Retention
Gene
ENSDARG00000044776 | clic3
Description
chloride intracellular channel 3 [Source:ZFIN;Acc:ZDB-GENE-010507-2]
Coordinates
chr21:13568919-13569308:-
Coord C1 exon
chr21:13569183-13569308
Coord A exon
chr21:13569026-13569182
Coord C2 exon
chr21:13568919-13569025
Length
157 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTATTTATTTTTCATTACAGATA
3' ss Score
10.03
Exon sequences
Seq C1 exon
AGCTCCAGAGGTATTAAAGGACCTGGCTCCAGGTTCTCAGCCCCCTTTCCTCATTTATAATGGAGAGGTGCGCACTGACACCAACAAGATTGAGGAGTTTCTGGAAGACACCCTTGCTCCCCCACA
Seq A exon
GTGAGTGTGCAAATAAAATGCATGAAATATACAGTAATGTGTCTTATGTTTTGTATAAAATACCACTATTTGTTCCACTTTAAATCAAACATTTGACAACATAAATAGAAAGCAGGAATTGTCTATAAAGTATTTATTTATTTATTTTTCATTACAG
Seq C2 exon
ATATCCCAAGTTATGCTGCCGCTATAAGGAGTCTAACACGGCAGGCGATGACATCTTTCATAAATTCTCTGCATATATCAAAAATCCCAATCCTGGACTCAATGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044776:ENSDART00000146717:4
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=0.000
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100),PF134101=GST_C_2=PU(13.8=44.2)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(26.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAGGTATTAAAGGACCTGGC
R:
TGTCATTGAGTCCAGGATTGGG
Band lengths:
229-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]