DreINT0047534 @ danRer10
Intron Retention
Gene
ENSDARG00000044776 | clic3
Description
chloride intracellular channel 3 [Source:ZFIN;Acc:ZDB-GENE-010507-2]
Coordinates
chr21:13567729-13569025:-
Coord C1 exon
chr21:13568919-13569025
Coord A exon
chr21:13567905-13568918
Coord C2 exon
chr21:13567729-13567904
Length
1014 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGG
5' ss Score
5.42
3' ss Seq
TTTAATGTTGAATCTTTCAGTGC
3' ss Score
6.79
Exon sequences
Seq C1 exon
ATATCCCAAGTTATGCTGCCGCTATAAGGAGTCTAACACGGCAGGCGATGACATCTTTCATAAATTCTCTGCATATATCAAAAATCCCAATCCTGGACTCAATGACA
Seq A exon
GTAAGGGTCACCCTTCTCTGAAGCTTTTTATCCAGTTAAAACTGTAGTTTGTGATCCAAGGCAGTGAACCTCAGAAACACTTTGTGCTTAAAATATGGAGACTGTCACTTCAAACGCATTTGTAAAATCTACAAATAGAAAGATAGATAGATGTAACAATAAATATAATGATGGATGGATGGATGGATGGATGGATGGATGAAAATGCCAATAGATGGTTGGATAAATGGATGTCAATAAATATAACAATAGTTTTATAGATAGATAAATGGTTAGATGGATGGACATGCCAATCAATGTATGTATGTGTGAATGTGTCAAATGAATGGATAGTTGTCTATAAATAGATAAATGGGTGGATTGATAGATGGATGTCAATAAATATAACGGACGGACGGACAGACAGACGGACGGATTGGATAGACAGACAGACAGACAGACAGACAGACAGATAGATATATAGATAGATAGATAGATAGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATAGATGGATGGATGGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAAAAATGTCAATAGATGGGTAGATAGATTTATATGTCAATAAATGTAACAATAAATTTATGGATAGATGGATGCATGGATGGATGGATGGATATGTCAATAGATGGATAGATGGACAGATAGATGTGTCAATAAATATAACGATAGACAGACAGACAGACAGACAGACAGAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAAAAGAAAGAAAGATGTAACAATGGAGGAATGGATTGATTAGAATGTCATCACTTTAATGTTGAATCTTTCAG
Seq C2 exon
TGCTGGAGAAGAAGTTTCTAAAGAGCTTGATGAAGTTGGATCAGTACCTGTTAACTCCCCTTCCTCATGAACTGGACCAGAATCCAGAGTTATCGACGTCCACTAGACACTACCTGGACGGAAATGCACTCTCTCTTGCTGACTGCAACCTGCTTCCAAAACTACACATCGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044776:ENSDART00000146717:5
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=0.102
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=FE(26.1=100)
A:
NA
C2:
PF134101=GST_C_2=FE(42.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCCCAAGTTATGCTGCCGC
R:
TGACGATGTGTAGTTTTGGAAGCA
Band lengths:
280-1294
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]