DreINT0077340 @ danRer10
Intron Retention
Gene
ENSDARG00000016527 | helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:ZFIN;Acc:ZDB-GENE-120920-1]
Coordinates
chr6:58612807-58613280:+
Coord C1 exon
chr6:58612807-58612999
Coord A exon
chr6:58613000-58613145
Coord C2 exon
chr6:58613146-58613280
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TAAACTAATTCATGTTTTAGATT
3' ss Score
7.12
Exon sequences
Seq C1 exon
CTTCAGAGAAATCCTCAAAAAGGCTCGAAAGCATGAATTATTGCACCATGACGTAATCTTATGCACGTGCACCGCAGCTTCACATCCAGCACTGGCGGAAACCCTTGACTTTAAGCAGATCATCATTGATGAATGTGCCATGGCCACTGAACCTGAAGCCTTTATTCCTCTCGTGGCTCATAAACCTGAGCAG
Seq A exon
GTATGATTGCAAACCACTGTTGTATTTAGCCAAACTCTAAATACTGGATATTAGCAGCACATTAAAGGCTACTGGAGACTTTTTTGCAGTTTGCAATGAACAAAGAATGCATTTTTATGTTCTTATTAAACTAATTCATGTTTTAG
Seq C2 exon
ATTGTCCTTCTTGGCGATCACAAACAGCTTCAACCAGTGGTCCACTGCGAGGTGGCGGAGCGATTAGGAATGAGCAGATCTCTTTTTGAACGTTACATGGAGAACGCACTCATGCTTGACACCCAGTACAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016527:ENSDART00000154393:16
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=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(26.7=100)
A:
NA
C2:
PF130861=AAA_11=PD(6.7=35.6),PF130871=AAA_12=PU(10.3=46.7)
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:
GCAGCTTCACATCCAGCACT
R:
ACTGGGTGTCAAGCATGAGTG
Band lengths:
247-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]