BtaEX6082166 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48718311-48721665:+
Coord C1 exon
chr18:48718311-48718398
Coord A exon
chr18:48720283-48720361
Coord C2 exon
chr18:48721584-48721665
Length
79 bp
Sequences
Splice sites
3' ss Seq
CTTGGCCTTTCCATCCCCAGCTG
3' ss Score
10.39
5' ss Seq
AAGGTACGC
5' ss Score
10.4
Exon sequences
Seq C1 exon
AGACCTCTGCCAAGGAGGGGCTCCTCCTCTGGTGCCAGAGAAAGACGGCCCCGTACAAGAATGTCAACGTGCAGAACTTCCACATCAG
Seq A exon
CTGGAAGGATGGTCTTGCCTTCAATGCCCTGATCCACCGGCACAGACCAGAGCTGATCGAGTACGACAAGCTGAGAAAG
Seq C2 exon
GACGACCCCGTCACCAACCTGAACAATGCCTTCGAAGTGGCTGAGAAATACCTCGACATCCCCAAGATGCTAGATGCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215-'18-9,'18-8,20-9=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0030726=CH=PU(24.0=83.3)
A:
PF0030726=CH=FE(25.0=100)
C2:
PF0030726=CH=FE(26.0=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTCCTCTGGTGCCA
R:
GCATCTAGCATCTTGGGGAT
Band lengths:
146-225
Functional annotations
There are 3 annotated functions for this event
PMID: 16980305
This study isolated a novel splice variant of alpha-actinin 4 (skipping exons 3-12; ENST00000424234)... [Show more]
PMID: 22908231
ACTN4(Iso) overexpression increases transcriptional activity of the VDRE and ERE promoters. Both ACT... [Show more]
PMID: 27998979
Overexpression of either ATN4(WT) or ACTN4(Iso) increases GRE reporter activity. Disruption of the L... [Show more]
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]