GgaINT0011579 @ galGal4
Intron Retention
Gene
ENSGALG00000006138 | HELZ2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:HGNC Symbol;Acc:HGNC:30021]
Coordinates
chr20:14273651-14274401:+
Coord C1 exon
chr20:14273651-14273767
Coord A exon
chr20:14273768-14274208
Coord C2 exon
chr20:14274209-14274401
Length
441 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TCTTCTGCATCAATCACCAGGCA
3' ss Score
6.56
Exon sequences
Seq C1 exon
CACGATAATTCTGCACCATCGGATCCGACAGCCATCCAACCCCAAATGTCAGCAGATCTGTCAATTTGACCGTCGAGTGAGGGCAGGAGAGGAGATAACAGAAGAAGAAATAAAGCA
Seq A exon
GTGAGTAGAAGGAGACCCTGGTGAGAGATATCTGAAAGTCAGCAGGTTTGTCCTGGCTCATGCAAACCAAGGGACCAGGTGAAAACGTTAAAAAGGACTAATTAGCTCTGTGTTTAGAATGATGGTAAGCAATTAGCTGAGGGTTAGTGCTACAGTTATGGCTCAGCATCTCGTCTGCTCAATGATATTGTTCTTCTGGTCCCAAGGTCTCAAGTATGTGTGTGCATCCCCCATCCTGACTCTCTGCCCTGTTGAGTTCAGAACAAATGCATTTCCTGCTGTGTGTGCCTCAAGCCCTTTTCTGGCAACACCAGCTTGTTCTGGGGTGGTTAACAGAGCCATAATCATTTAGGGAAGTACAGCTTCTGCCTGGTTCCTGCATGAGGAACCTGGGGATGTTTCCGTTGCGCGTAACCTGGTGTCTTCTGCATCAATCACCAG
Seq C2 exon
GCACAAACATACCTTGATGGAAGCTCGTGCGTATGAACTGGCGTGCCACGACGTCATCTTGTGTACATGCTCCTCTGCATCTGCCGGCTCCCTGGAGAAGCTCAATGTCAAGCAGATACTCATCGATGAGTGCGCCATGTCCACAGAACCCGAGACCCTCATCCCTTTGGTCAGCCATAAACATGCTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006138:ENSGALT00000009906:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.275 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(15.7=100)
A:
NA
C2:
PF130861=AAA_11=FE(25.7=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:
CACGATAATTCTGCACCATCGGA
R:
CTTCTCAGCATGTTTATGGCTGAC
Band lengths:
310-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]