BtaEX6082164 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48722388-48728805:+
Coord C1 exon
chr18:48722388-48722473
Coord A exon
chr18:48726887-48726979
Coord C2 exon
chr18:48728575-48728805
Length
93 bp
Sequences
Splice sites
3' ss Seq
AACCCCGTCCCCCGACCCAGGCT
3' ss Score
4.68
5' ss Seq
GACGTGAGT
5' ss Score
9.22
Exon sequences
Seq C1 exon
ACATCGTGAACACGGCCCGGCCCGACGAGAAGGCCATAATGACCTATGTGTCCAGCTTCTACCATGCCTTTTCGGGAGCGCAGAAG
Seq A exon
GCTGAGACCGCTGCCAACCGGATCTGCAAGGTGCTGGCCGTCAACCAGGAGAACGAGCACCTGATGGAAGATTATGAGAGGCTGGCCAGCGAC
Seq C2 exon
CTCCTGGAGTGGATCCGGCGCACCATCCCCTGGCTGGAGGACCGCGTGCCGCAGAAAACCATCCAGGAGATGCAGCAGAAGCTGGAGGACTTCCGCGACTACCGGCGGGTCCACAAGCCGCCGAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACGCTGCAGACCAAGCTGCGCCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAAGATGGTGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215-'22-14,'22-13,25-14=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0030726=CH=PD(23.1=82.8)
A:
PF0043516=Spectrin=PU(9.9=35.5)
C2:
PF0043516=Spectrin=FE(68.5=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCATGCCTTTTCGGGAGC
R:
TGATCTCCAGCTGGCACTTCT
Band lengths:
182-275
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]