GgaINT0011566 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14260723-14262054:+
Coord C1 exon
chr20:14260723-14261794
Coord A exon
chr20:14261795-14261870
Coord C2 exon
chr20:14261871-14262054
Length
76 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
GGATGGCTCTCTCCCGACAGAGC
3' ss Score
7.82
Exon sequences
Seq C1 exon
GCTTTGTGGGTTCGCACCAATGGCCGGTGGGTGTGTAGCCAGCTAGCACCACCTCGTAGAAACTTCCCCGCACCGCCACCATGCCGAATGCCAAAGCCCCCCCGGTGCTACTGGACAGCCTGCAGCGCCAGGTGGAGCTGCTGCTGGTCTGCTCCAAGTGCAGCATGAGGGAGGATGAGATCACCTACCGCCCGCTCCCAGTGGAGCACAAGTGCATGTATGAGATCCTGCTGGCCCGTTGCCGCAGCCGACACGGTGTTGCTTGGAGGAAGGTGTTCCGGCGGCCAGGCTTCCCGAACCCGGCGCGCTACGCCGTCTGCAGGTATTACAGACTGGGCTTGGGCTGCAGCAAGCATGGCAACCAGTGCACCTTTGCCTGGAGCCCGGAGGAGGCCCTTGTGTGGAACTTCGAGAGGGAGCACCGGCTGGAGCGGCGTTGGCTGAAGGCAGCGGTGCTGCTGGCGCAGCTGGGGGGCAGCTCCAGCGCCGAGCCCCTCAGTGCCTGCAGTGAGATCCTGAGTGAGTTCGGGGGGCAGTTCCAGGAGATCTGCAGGCTTTGCTTCTTCGGATGCCCTCAGCGCATCTCGGTGGGCGGCCATGGGCAGCTATGTGAGTCGCACCGCGTCTGGGACCCGCTGCTGGTGCACGTGGTGGCTGACAGCCGCTGCAAGAAGCAGTACACGGCCATCCGGCCCTGCCCCGAGTTCATGACCAGCTTCAGCTACTGCCGCTTCGTCTCCAAGGGGCAGCCGTGCCGGCACGGTGAGAAGCGCTGCCAGTACGCGCACAGTGACGTGGAGATGGCCGTCTGGGAGGCTGAGAAGGAGCACGGCCTGGCACGCTCCAACCTGCTGCCAGCACCAGGGCCGTGCGTGGAGAATGGCAAGCCCTCAGCACCCGCCCCCGTGCACTTCTACTGCCGGCTGTGCCTGGTGACCTTCAGTTCGCAGGAGAGCTTTGAGAACCACTGCTCCTCCGTGGAGCATGTACAGATGCTGTCGGTTGACACCTCCGTGCAGTGGATGCACCGAGCTCCACCACTTGGGCTCAGTACCTTCAAGCTGTGCAGCAG
Seq A exon
GTAAGGGGCTGGGCAGCAGGGCGGGCAGCGTGGGTTCCAGGTGCGGGTGGCAGCTGGGATGGCTCTCTCCCGACAG
Seq C2 exon
AGCGGAGGTGTGCGAGATGGGGGACAGCTGCACCAAGGCTCACTCCAACGAGGAGCTGCAGGAGTGGATCCAGAGGGTGAATGTTGCTGCCAAGAAGAAGAAGCGGGCCATAAAGGAAGGGTTGGTGTCCTACCAGGACCGGCTCATTGCTGAATATCAGACGTGCTCCAACGAGGTGCTGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF128742=zf-met=WD(100=7.6)
A:
NA
C2:
NO
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:
GCATGTACAGATGCTGTCGGT
R:
TTCACCCTCTGGATCCACTCC
Band lengths:
171-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]