GgaINT0011583 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14275986-14276647:+
Coord C1 exon
chr20:14275986-14276142
Coord A exon
chr20:14276143-14276479
Coord C2 exon
chr20:14276480-14276647
Length
337 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GGTTCATTTGTGCTTTCTAGGAA
3' ss Score
8.65
Exon sequences
Seq C1 exon
GTGAGGACTGCGAAGCAGCTGACACTAGATGGCACCATCCGGCCGCAGAGCATCGCCATCCTCAGCCCTTACAACGCCCAGGTGTCCGAGATCAACAAGCGCCTGCTGAAAGAAGGCATCCGCGGGGTCACCGTCTGCACCATCATGAAGAGCCAAG
Seq A exon
GTGGGGCTGCAGGGAAGGAGAAGGCACTGCTCCTCTCTCCTGAGGGCTGGAGCAACTTCTCACCGAGACAAATCCTTCTGGATGTCTTGTGATGATGATAAATTACAGTGCCCAAGCGGGATGAGGCTGATGGGAGTGGGAGGCTCAATGGAGAGGACATCTGAAGGGGTTATTAAAGATCTACTATTGGAAGAGCTCTGCAGAGATCAATGAGCAGGAGTTGGGTGGCTTTCAGAGCTGGAGAGACCCACTTGGTGCTTGCAGGTTGTGGGTCTTGAGTAGCGTGGAGTGGCCAGACACTTCCACCTAAAATACAGGGTTCATTTGTGCTTTCTAG
Seq C2 exon
GAAGTGAATGGAGATATGTGATCCTGTCAACCGTACGCTCCTGCTCTCGACACGAGATCGACAAGAAGCCCACCAAGAGCTGGCAGAAGAAACACCTGGGTTTTGTCACTGACCCAAACCAGGTCAATGTCGCCATCACCCGTGCTCAGGAAGGACTCTGCATTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.018
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(25.1=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.1=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:
CGAAGCAGCTGACACTAGATGG
R:
ATGCAGAGTCCTTCCTGAGCA
Band lengths:
310-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]