GgaEX0008987 @ galGal3
Exon Skipping
Gene
ENSGALG00000006284 | SHLB1_CHICK
Description
NA
Coordinates
chr8:16644199-16648776:-
Coord C1 exon
chr8:16648738-16648776
Coord A exon
chr8:16645713-16645736
Coord C2 exon
chr8:16644199-16644288
Length
24 bp
Sequences
Splice sites
3' ss Seq
GCTCTTTTAATGCTGACTAGATA
3' ss Score
3.33
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
Exon sequences
Seq C1 exon
CAACTAAACACCTCTCAGCCTGAAGAGAATAACATTATG
Seq A exon
ATATGGGCTGAGGAAGTGACAAAA
Seq C2 exon
TCTGAACAGGAAGTACGAATTACTCAAAGTGAATTTGACCGTCAAGCAGAGATTACCAGACTTCTCCTGGAAGGTATCAGCAGCACACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006284-'10-9,'10-8,12-9
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.172 A=0.000 C2=0.093
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(10.2=100)
A:
NA
C2:
PF0311413=BAR=FE(11.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ACACCTCTCAGCCTGAAGAGA
R:
TGCTGCTGATACCTTCCAGGA
Band lengths:
117-141
Functional annotations
There are 2 annotated functions for this event
PMID: 24523556
HsaEX0058019 and HsaEX0058023 are often included together. This splice isoform is associated with increased neuronal viability and mitochondrial elongation. The mitochondrial effect is associated with mitochondrial maintenance and function. Loss of this isoform is suggested to render neurons more susceptible to apoptotic stress.
PMID: 29759485
Isoforms 1b + 1c (represented by joint inclusion of this event and HsaEX0058019), show an antiapoptotic effect in human androgen-sensitive prostate cancer cell lines, while isoform 1a (corresponding to skipping of both exons) shows a pro-apoptotic effect. Isoforms 1b and 1c are up-regulated in patient-derived samples of treatment-induced neuroendocrine prostate cancer, which is a very aggressive and metastatic form of prostate cancer characterised by increased expression of SRRM4 (ENSG00000139767), a known master regulator of microexon inclusion in neuronal-related cell types. In contrast, prostate adenocarcinoma samples predominantly express isoform 1a.