Special

DmeEX0006922 @ dm6

Exon Skipping

Gene
Description
The gene Ultrabithorax is referred to in FlyBase by the symbol DmelUbx (CG10388, FBgn0003944). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (6 unique). Gene sequence location is 3R:16656623..16734426. Its molecular function is described by 6 unique terms, many of which group under: binding; nucleic acid binding; organic cyclic compound binding; protein binding; DNA binding. It is involved in the biological process described with 21 unique terms, many of which group under: imaginal disc morphogenesis; specification of segmental identity, thorax; regulation of muscle organ development; muscle cell fate specification; renal system development. 453 alleles are reported. The phenotypes of these alleles manifest in: eye-antennal disc; digestive system; foregut; adult neuron; presumptive embryonic/larval peripheral nervous system. The phenotypic classes of alleles include: visible; increased mortality during development; lethal - all die before end of prepupal stage; phenotype. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of very low expression. Peak expression observed at stages throughout embryogenesis, during early pupal stages.
Coordinates
chr3R:16656623-16734426:-
Coord C1 exon
chr3R:16732725-16734426
Coord A exon
chr3R:16710562-16710612
Coord C2 exon
chr3R:16656623-16659073
Length
51 bp
Sequences
Splice sites
3' ss Seq
TTTCTCTCTATTTTTTCCAGGTA
3' ss Score
11.61
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
Exon sequences
Seq C1 exon
TGGAGCCGGAGCCTACAAACAGGACTGCCTGAACATCAAGGCGGATGCGGTGAATGGCTACAAAGACATTTGGAACACGGGCGGCTCGAATGGCGGCGGGGGTGGCGGCGGAGGCGGTGGTGGCGGCGGAGCGGGCGGAACAGGTGGAGCCGGCAATGCCAATGGCGGTAATGCGGCCAATGCAAACGGACAGAACAATCCGGCGGGCGGTATGCCCGTTAGACCCTCCGCCTGCACCCCAGATTCCCGAGTGGGCGGCTATTTGGACACGTCGGGCGGCAGTCCCGTTAGCCATCGCGGCGGCAGTGCCGGCGGTAATGTGAGTGTCAGCGGCGGCAACGGCAACGCCGGAGGCGTACAGAGCGGCGTGGGCGTGGCCGGAGCGGGCACTGCCTGGAATGCCAATTGCACCATCTCGGGCGCCGCTGCCCAAACGGCGGCCGCCAGCAGTTTACACCAGGCCAGCAATCACACATTCTACCCCTGGATGGCTATCGCAG
Seq A exon
GTAAGAGATACTCAGAATCTCTTGCGGGCTCACTTCTACCAGACTGGCTAG
Seq C2 exon
GTACAAATGGTCTGCGAAGACGCGGCCGACAGACATACACCCGCTACCAGACGCTCGAGCTGGAGAAGGAGTTCCACACGAATCATTATCTGACCCGCAGACGGAGAATCGAGATGGCGCACGCGCTATGCCTGACGGAGCGGCAGATCAAGATCTGGTTCCAGAACCGGCGAATGAAGCTGAAGAAGGAGATCCAGGCGATCAAGGAGCTGAACGAACAGGAGAAGCAGGCGCAGGCCCAGAAGGCGGCGGCGGCAGCGGCTGCGGCGGCGGCGGTCCAAGGTGGACACTTAGATCAGTAGATCCTTAGATCCTTAGATCCTTAGATCCGTAGGGTGTATGTGGGATTGGGCGAAATGACGCGGAGACAGATACAAAGCAACTATATTGTAACAAATGAACTATTTACTTAAATGAATAATATTTAAATATTTTGATGGTACTTGTGCGAATACGAAACTTAACCTAAATCGAACCTAATGGAATTATTTCAAGCGTTT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003944_MULTIEX1-2/2=C1-C2
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.518 A=0.042 C2=0.245
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
PF0004624=Homeobox=WD(100=56.4)


Main Inclusion Isoform:
FBpp0082796


Main Skipping Isoform:
FBpp0082794


Other Inclusion Isoforms:
FBpp0082793, FBpp0082795, FBpp0082797


Other Skipping Isoforms:
FBpp0089155
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTTACACCAGGCCAGCAA
R:
TCGTGTGGAACTCCTTCTCCA
Band lengths:
134-185
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Neural diversity
  • Neurogenesis
  • Neuronal activity
  • Splicing factor regulation (brain)
  • Splicing factor regulation (SL2)