Special

BtaEX6082162 @ bosTau6

Exon Skipping

Gene
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48728575-48733570:+
Coord C1 exon
chr18:48728575-48728805
Coord A exon
chr18:48729377-48729524
Coord C2 exon
chr18:48733420-48733570
Length
148 bp
Sequences
Splice sites
3' ss Seq
GCCCTCTCCTGCCCCCACAGGAC
3' ss Score
11.63
5' ss Seq
ATGGTACAG
5' ss Score
3.5
Exon sequences
Seq C1 exon
CTCCTGGAGTGGATCCGGCGCACCATCCCCTGGCTGGAGGACCGCGTGCCGCAGAAAACCATCCAGGAGATGCAGCAGAAGCTGGAGGACTTCCGCGACTACCGGCGGGTCCACAAGCCGCCGAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGCTGCGCCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAAGATGGTGTCG
Seq A exon
GACATCAACAACGGCTGGCAGCACCTGGAGCAGGCCGAGAAGGGCTACGAGGAGTGGCTGCTGAACGAGATCCGCCGGCTGGAGCGGCTCGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCACGAGGCCTGGACCGATG
Seq C2 exon
GGAAGGAGGCCATGCTGAAGCACCGGGACTATGAGACGGCCACCCTGTCGGACATCAAGGCCCTCATCCGCAAGCACGAAGCCTTCGAGAGCGACCTGGCCGCCCACCAGGACCGCGTGGAGCAGATTGCCGCCATCGCCCAGGAGCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215-'26-19,'26-16,27-19=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:
PF0043516=Spectrin=FE(68.5=100)
A:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
C2:
PF0043516=Spectrin=FE(47.2=100)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
HIGH PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGCAGAAAACCATCCAGGAG
R:
GATGAGGGCCTTGATGTCCGA
Band lengths:
251-399
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]