GgaINT0011580 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14274209-14275255:+
Coord C1 exon
chr20:14274209-14274401
Coord A exon
chr20:14274402-14275120
Coord C2 exon
chr20:14275121-14275255
Length
719 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGT
5' ss Score
8.68
3' ss Seq
GCATCCACCATTTGTTCCAGGTT
3' ss Score
6.37
Exon sequences
Seq C1 exon
GCACAAACATACCTTGATGGAAGCTCGTGCGTATGAACTGGCGTGCCACGACGTCATCTTGTGTACATGCTCCTCTGCATCTGCCGGCTCCCTGGAGAAGCTCAATGTCAAGCAGATACTCATCGATGAGTGCGCCATGTCCACAGAACCCGAGACCCTCATCCCTTTGGTCAGCCATAAACATGCTGAGAAG
Seq A exon
GTCAGTCCTTTCCAGAGAGCTGTCCTAAAGACAGCTTGCCTCTCTGCTTGGTTGGCTCAGCTCCCTTTTTTCAGTGAATCACTTTAGGGATCACCTCAACCATTATGGGGTCAAACCAACCATGATGGAGTGATTCCATAATGGGGTTCATGGACTTTTATAGCATGAACCCAACCATGATGGATCAGCCCAACAGTAATGGTGATCTGTGGCAGGGTAAAAGTCAATGGTGGGATTCTCTGATCTTTGATAGGATCAACCCAGCCATGATGGTGTCCGTGATTGGGTTCACTGGTCTTTTATGGAGTTGACCCAACAAAGATGGAGTCCACAATAGAGGGATTTGATCTTGCATTTGGCTTTCAGCAGGGAAAACAAGTTGTGTGGATGTGGTTTTGGTGACTTTTTGCAAGGCGAGCATCACTGCCACCAAAATATGTCCTGAACCACATACAAGTTATCAGCATGGCAGGAAGCAGAGGGCAGATCTCCACAGACTTTCTGTGTGTTGTTTTTCTCCTGTCAGATGGGAATAAGGCTCTGCATTATCTGGGTCATTGATTTTATATAATACACAGCATGGCCCTTGTTTGAGGTTGCTGTAACTGTAACATAAATAAATGGCAACAAATATCTGAATATGAATGGTCTTTCAAAGAGCCGATGACCTTCACCATTGCCACTGCCCTCATAGCTGAAGCATCCACCATTTGTTCCAG
Seq C2 exon
GTTGTTTTGCTTGGGGATCACAAACAGCTGAAGCCTGTGGTCAACAATGACTTCTGCAAGAGCCTTGGCATGGAGACGTCTCTTTTTGAGCGCTACCAGAAGCAGGCATGGATGCTGGACACGCAGTACCGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.015 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(25.7=100)
A:
NA
C2:
PF130861=AAA_11=PD(6.4=35.6),PF130871=AAA_12=PU(10.1=46.7)
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:
GCACAAACATACCTTGATGGAAGC
R:
CATGCGGTACTGCGTGTCC
Band lengths:
328-1047
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]