BtaEX6082169 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000011215 | ACTN4
Description
Bos taurus actinin, alpha 4 (ACTN4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098052]
Coordinates
chr18:48713493-48717494:+
Coord C1 exon
chr18:48713493-48713607
Coord A exon
chr18:48713839-48713958
Coord C2 exon
chr18:48717408-48717494
Length
120 bp
Sequences
Splice sites
3' ss Seq
TTCATGGTGTTCGCCCTCAGGGG
3' ss Score
8.88
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
ACCTTCACAGCCTGGTGCAACTCCCACCTGCGGAAGGCCGGCACACAGATCGAGAACATTGATGAGGACTTCCGAGACGGGCTCAAGCTCATGCTCCTCCTGGAGGTCATTTCAG
Seq A exon
GGGAGCGGTTACCTAAGCCAGAGCGGGGCAAGATGAGAGTGCACAAAATCAACAACGTGAACAAGGCACTGGACTTCATCGCCAGCAAAGGGGTCAAGCTGGTCTCCATCGGGGCGGAAG
Seq C2 exon
AGATTGTGGACGGCAACGCGAAGATGACCCTGGGAATGATCTGGACCATCATCCTCAGGTTCGCCATCCAGGACATCTCTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011215-'13-4,'13-2,14-4=AN
Average complexity
A_S
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=FE(37.3=100)
A:
PF0030726=CH=FE(39.2=100)
C2:
PF0030726=CH=PD(20.6=70.0)
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:
ACCTTCACAGCCTGGTGCAA
R:
CTTCCACAGAGATGTCCTGGA
Band lengths:
202-322
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]