Special

BtaEX0011733 @ bosTau6

Exon Skipping

Gene
Description
Bos taurus dynamin 1 (DNM1), mRNA. [Source:RefSeq mRNA;Acc:NM_001076820]
Coordinates
chr11:98851939-98860473:+
Coord C1 exon
chr11:98851939-98852006
Coord A exon
chr11:98853127-98853265
Coord C2 exon
chr11:98860387-98860473
Length
139 bp
Sequences
Splice sites
3' ss Seq
CTCCTGCTCCGGGCATTCAGAAC
3' ss Score
4.96
5' ss Seq
AAGGTAACT
5' ss Score
9.01
Exon sequences
Seq C1 exon
ATGGAGTTTGACGAGAAGGAACTCCGAAGGGAGATCAGCTATGCCATCAAGAATATCCATGGCATTAG
Seq A exon
AACCGGGCTCTTTACCCCAGACATGGCCTTTGAGACCATTGTGAAAAAGCAGGTGAAGAAGATCCGAGAACCTTGTCTCAAGTGTGTGGACATGGTTATCTCGGAGCTAATCAGCACCGTTAGACAGTGCACCAAGAAG
Seq C2 exon
CTCCAGCAGTACCCCCGGCTGCGGGAGGAGATGGAGCGCATTGTGACCACCCACATCCGAGAGCGCGAGGGTCGCACCAAGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011307_MULTIEX1-2/4=1-4
Average complexity
ME(2-3[100=100])
Mappability confidence:
100%=100=100%
Protein Impact

In the CDS, with uncertain impact

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.000 C2=0.138
Domain overlap (PFAM):

C1:
PF0103115=Dynamin_M=FE(7.4=100)
A:
PF0103115=Dynamin_M=FE(19.7=100)
C2:
PF0103115=Dynamin_M=FE(9.5=100)


Main Inclusion Isoform:
ENSBTAT00000032743fB2220


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Conservation
Chicken
(galGal4)
ALTERNATIVE
Zebrafish
(danRer10)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGTTTGACGAGAAGGAACTC
R:
CTGCTCCTTGGTGCGACC
Band lengths:
154-293
Functional annotations
There are 3 annotated functions for this event
PMID: 9725914
The authors generated stably transfected Clone 9 cells expressing full-length cDNAs of six different spliced forms of the three dynamin genes (Dnm1, Dnm2, and Dnm3) tagged with green fluorescent protein. The investigated splice variants are: Dnm1 (with mutually exclusive exon 10a (MmuEX6100535) or exon 10b (MmuEX0015279), Dnm2 (with/without cassette exon (MmuEX0015304), and Dnm3 (with/without cassette exon MmuEX0015311). Confocal or fluorescence microscopy of these transfected cells revealed that many of the dynamin proteins associate with distinct membrane compartments, which include clathrin-coated pits at the plasma membrane and the Golgi apparatus, and several undefined vesicle populations.
PMID: 20700442
[Negative results]. Dynamin-1 (Dnm1) encodes a large multimeric GTPase necessary for activity-dependent membrane recycling in neurons, including synaptic vesicle endocytosis. Mice heterozygous for a novel spontaneous Dnm1 mutation--fitful--experience recurrent seizures, and homozygotes have more debilitating, often lethal seizures in addition to severe ataxia and neurosensory deficits. Fitful is a missense mutation in an exon that defines the DNM1a isoform (uses Exon 10a (MmuEX6100535)), leaving intact the alternatively spliced exon that encodes DNM1b (uses exon 10b (MmuEX0015279). The expression of the corresponding alternate transcripts is developmentally regulated, with DNM1b expression highest during early neuronal development and DNM1a expression increasing postnatally with synaptic maturation. Mutant DNM1a does not efficiently self-assemble into higher order complexes known to be necessary for proper dynamin function, and it also interferes with endocytic recycling in cell culture. In mice, the mutation results in defective synaptic transmission characterized by a slower recovery from depression after trains of stimulation. The DNM1a and DNM1b isoform pair is highly conserved in vertebrate evolution, whereas invertebrates have only one isoform. The authors speculate that the emergence of more specialized forms of DNM1 may be important in organisms with complex neuronal function. The DNM1a and DNM1b isoforms show similar complex formation ability and localization.
PMID: 27363778
Dynamin 1 is a large neuron-specific GTPase involved in the endocytosis and recycling of pre-synaptic membranes and synaptic vesicles. Mutations in the gene encoding dynamin 1 (DNM1) underlie two epileptic encephalopathy syndromes, Lennox-Gastaut Syndrome and Infantile Spasms. Mice homozygous for the Dnm1 ?fitful? mutation, a non-synonymous coding variant in an alternatively spliced exon of Dnm1 (exon 10a (not in vastDB, mutually exclusive with exon 10b); isoform designation: Dnm1aFtfl) have an epileptic encephalopathy-like disorder including lethal early onset seizures, locomotor and neurosensory deficits. Although fitful heterozygotes have milder recurrent seizures later in life, suggesting an additive or semi-dominant mechanism, the molecular etiology must also consider the fact that Dnm1aFtfl exerts a dominant negative effect on endocytosis in vitro. Another complication is that the fitful mutation induces alterations in the relative abundance of Dnm1 splice variants; mutants have a downregulation of Dnm1a and an upregulation of Dnm1b (uses exon 10b (MmuEX0015279) (mutually exclusive w. exon 10a)), changes which may contribute to the epileptic pathology. To examine whether Dnm1a loss of function, Dnm1aFtfl dominance or compensation by Dnm1b is the most critical for severe seizures, the authors studied alternate isoform-specific mutant mice. Mice lacking Dnm1 exon 10a or Dnm1 exon 10b have neither spontaneous seizures nor other overt abnormalities, suggesting that in normal conditions the major role of each isoform is redundant. However, in the presence of Dnm1aFtfl only exon 10a deleted mice experience severe seizures.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Pre-implantation embryo development