GgaEX0009304 @ galGal4
Exon Skipping
Gene
ENSGALG00000006531 | TRA2B
Description
transformer-2 protein homolog beta [Source:RefSeq peptide;Acc:NP_990009]
Coordinates
chr9:3895926-3905196:+
Coord C1 exon
chr9:3895926-3896043
Coord A exon
chr9:3901050-3901183
Coord C2 exon
chr9:3905034-3905196
Length
134 bp
Sequences
Splice sites
3' ss Seq
CTTTCAATATCTGCGTGCAGGAA
3' ss Score
8.05
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
Exon sequences
Seq C1 exon
ACTTCCTCTGCGGAGAGCGCTGGCGCCGGGGACGGTCGGGTCGGGTCGGCGCGGAGGTGGCGGGGAGTGGCGCGGCGGGACGATGAGCGACAGCGGGGAGCAGAACTACGGCGAGCGG
Seq A exon
GAATCCCGTTCTGCTTCCAGAAGCGGAAGTGCTCATGGGTCTGGCAAGTCGGGGAGGCACACCCCTGCAAGATCTCGATCTAAGGAGGATTCAAGGCGTTCCAGGTCAAAATCTAGATCCAGGTCTGAATCCAG
Seq C2 exon
ATCTAGATCAAGGAGGAGTTCCCGCAGGCACTACACCAGGTCACGCTCTCGTTCCCGCTCTCACAGAAGATCCAGAAGTAGGTCGTACAGTCGGGATTATCGGCGACGACACAGTCACAGCCATTCACCCATGTCTACTCGCAGACGCCACATTGGAAACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006531_MULTIEX1-2/2=C1-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
Show structural model
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
ENSGALT00000010555fB1021
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTCCTCTGCGGAGAGC
R:
ACATGGGTGAATGGCTGTGAC
Band lengths:
252-386
Functional annotations
There are 1 annotated functions for this event
PMID: 14709600
Presence of the CLK2 kinase prevents the usage of exons 2 (HsaEX0066781) and 3 (HsaEX0066782), generating the htra2-beta3 mRNA. The resulting HTRA2-BETA3 protein lacks the first RS domain of HTRA2-BETA1, is expressed in several tissues and has no influence on tra2-beta splice site selection. It is proposed that the regulation of the tra2-beta pre-mRNA alternative splicing provides a robust and sensitive molecular sensor that measures the ratio between HTRA2-BETA1 and its interacting proteins.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]