GgaINT0011576 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14272460-14272986:+
Coord C1 exon
chr20:14272460-14272591
Coord A exon
chr20:14272592-14272818
Coord C2 exon
chr20:14272819-14272986
Length
227 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TAGCATTCTTGCTTTTCTAGGTA
3' ss Score
9.43
Exon sequences
Seq C1 exon
TCACCAAGTCCAAAATCCTGCAGCAAAAATCCTTTGATCTCCCTGGCAGCCAAAGGAAGCTCAACCCAAGTCAGAACAAGGCTGTGCTAAATGCCTTAACAAAACCCTTCACGCTCATCCAAGGCCCACCAG
Seq A exon
GTAAGGCAGAGGATAGCCCTTTGAGTACTTGCTCCTTAAAGGCAGGTGAGAACTTGTCTGTTGCTTTCCCTGGGACAGATGAAGGTAATGCAGGTTGGTATCACCTCAGGCTGTTCAGGGCAGTCCCCTTGGTTCTGGGGTTTTATTTGTGGCTGATCATTTGGACAGTGATCTAGAGCAAGAGTATTGTGGTTAAAGCATTCTCAGTAGCATTCTTGCTTTTCTAG
Seq C2 exon
GTACAGGCAAAACTGTTGTTGGAACTCACATTGTCTACTGGTTCCATAAGCTGAATGAGGAGGCCACCGCGAAGGAGCAACTGCCGTGCCCTGATGAGGATGAGCCCCAAGGGAAAAAGTGCATCTTGTATTGTGGCCCATCCAACAAGTCTGTTGATGTTGTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.175
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(10.0=55.6)
A:
NA
C2:
PF130861=AAA_11=FE(22.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAAGTCCAAAATCCTGCAGC
R:
CAGCAACAACATCAACAGACTTGT
Band lengths:
297-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]