DreINT0077336 @ danRer10
Intron Retention
Gene
ENSDARG00000016527 | helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:ZFIN;Acc:ZDB-GENE-120920-1]
Coordinates
chr6:58605022-58605389:+
Coord C1 exon
chr6:58605022-58605165
Coord A exon
chr6:58605166-58605251
Coord C2 exon
chr6:58605252-58605389
Length
86 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGC
5' ss Score
8.19
3' ss Seq
ATTTATCTTCATTTTCTCAGGGA
3' ss Score
7.93
Exon sequences
Seq C1 exon
GATGTAAAATACCAAATCAGAATACAGGCAGGTTTGAGATCAACAGTTATCATCCTTCTGGGTTATCCCATCTAAACAACAGCCAAAGTAAAGCAATAAGAGAAGCACTGACTAACCCATTCACACTTATCCAAGGACCACCGG
Seq A exon
GTGAGCCTCTCTTTGTTTTCTCAAAGTTCATTGAAATTCTCAAAGTCCTTTTTTGATTACTTTATAATTTATCTTCATTTTCTCAG
Seq C2 exon
GGACTGGAAAAACTGTTGTTGGTGTCCATATTTTGTACTGGCTGCACAAGAATATCCAACAGCTCCAAGCTTCTGGTTCAAAGAAGAGAGCTATTCTGTACTGTGGCCCGTCAAATAAATCTGTTGATGTTGTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016527:ENSDART00000154393:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(10.4=51.0)
A:
NA
C2:
PF130861=AAA_11=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGGCAGGTTTGAGATCAACA
R:
TGGATATTCTTGTGCAGCCAGT
Band lengths:
179-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]