Special

MmuEX6009507 @ mm10

Exon Skipping

Gene
Description
actinin alpha 4 [Source:MGI Symbol;Acc:MGI:1890773]
Coordinates
chr7:28905225-28911575:-
Coord C1 exon
chr7:28911490-28911575
Coord A exon
chr7:28906972-28907064
Coord C2 exon
chr7:28905225-28905455
Length
93 bp
Sequences
Splice sites
3' ss Seq
TGTGTGCTTCTCCACTCTAGGCT
3' ss Score
10.34
5' ss Seq
GATGTGAGT
5' ss Score
7.77
Exon sequences
Seq C1 exon
ACATCGTGAACACAGCCCGGCCCGACGAGAAGGCCATAATGACATATGTGTCCAGCTTCTACCATGCCTTTTCAGGAGCGCAGAAG
Seq A exon
GCTGAGACCGCTGCCAACCGGATCTGCAAGGTGCTGGCTGTGAACCAGGAAAATGAGCACCTGATGGAAGACTATGAACGCCTGGCCAGTGAT
Seq C2 exon
CTTCTAGAGTGGATTCGGCGCACCATCCCCTGGCTGGAGGACCGGGTGCCTCAGAAGACCATCCAGGAAATGCAGCAGAAGCTGGAGGACTTCCGAGACTATAGGCGTGTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGTCAGCTGGAGATCAACTTCAACACACTGCAGACCAAGCTGCGGCTCAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054808-'46-32,'46-28,49-32=AN
Average complexity
A_S
Mappability confidence:
NA
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 Inclusion Isoform:


Main Skipping Isoform:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTCCAGCTTCTACCATGCC
R:
GACACTTCTCCTGCACCTTGG
Band lengths:
181-274
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]


SPECIAL DATASETS

  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types