GgaINT0011575 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14271987-14272591:+
Coord C1 exon
chr20:14271987-14272072
Coord A exon
chr20:14272073-14272459
Coord C2 exon
chr20:14272460-14272591
Length
387 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
ATGTCTCTTTGCTCTAACAGTCA
3' ss Score
8.76
Exon sequences
Seq C1 exon
GCGGAAAGAAAATGCAATTTGGAAGCTCCAGAATGCCTCCGATCTCGCTAAAAGCATTGCCCTTGGCCATGAACCTCCATCAAAAG
Seq A exon
GTAGAGAAGACATTCTCCATCCTCATACTGCAGTCCGTGCTGGCCAGGCAGGTGCCCTGGAGCTTCTCTGGGCCTTTGCCATGGGGGTTCTGCTCTCAGGCCAGGAGGTTTCCCTGTAAAGGGTTGGGGCAGCTGCTAGCCCAACAGAGTGCAGGTGGCAGAGGTGCAGGCTCCTGCTGGAGCAGGTGCAGCTCGGGTTTTATCCCTAGGACATGCAGAGAAGTCTCCTGGGTAGACCCTTTTGGCACGGGATGGGAATTACATTTGGATGCTCTTGTAATGGGGCTGCAATTGTTTGGAACCTGACACATCCTCCTGTTGAACTGCATGCGTGCTGTCTTCAGTAACCTTCTTTAAACTGGTTTTCATGTCTCTTTGCTCTAACAG
Seq C2 exon
TCACCAAGTCCAAAATCCTGCAGCAAAAATCCTTTGATCTCCCTGGCAGCCAAAGGAAGCTCAACCCAAGTCAGAACAAGGCTGTGCTAAATGCCTTAACAAAACCCTTCACGCTCATCCAAGGCCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.200
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF130861=AAA_11=PU(10.0=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGAAAGAAAATGCAATTTGGA
R:
CTGGTGGGCCTTGGATGAG
Band lengths:
218-605
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]