Special

DmeEX6020043 @ dm6

Exon Skipping

Gene
Description
The gene seven up is referred to in FlyBase by the symbol Dmelsvp (CG11502, FBgn0003651). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (5 unique). Gene sequence location is 3R:12258737..12302785. Its molecular function is described by 9 unique terms, many of which group under: transcription regulator activity; protein binding; DNA-binding transcription factor activity; binding; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with 18 unique terms, many of which group under: regulation of biological quality; chemical homeostasis; organic substance biosynthetic process; cardiac cell fate commitment; locomotion. 72 alleles are reported. The phenotypes of these alleles manifest in: 7-1M; subesophageal ganglion neuron; intracellular organelle; abdominal larval oenocyte group; mechanosensory system. The phenotypic classes of alleles include: developmental rate defective; phenotype; cell number defective; immune response defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 06-24 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages.
Coordinates
chr3R:12290209-12300636:+
Coord C1 exon
chr3R:12290209-12290358
Coord A exon
chr3R:12294008-12294559
Coord C2 exon
chr3R:12300479-12300636
Length
552 bp
Sequences
Splice sites
3' ss Seq
TTTTCCCTCTTTCTTTTCAGCTG
3' ss Score
12.92
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
Exon sequences
Seq C1 exon
GTTGCAAATCTTTCTTCAAGCGCTCGGTGCGACGTAATCTAACTTACTCTTGCCGCGGCAGCAGAAACTGTCCCATAGATCAACACCATCGCAATCAATGTCAATATTGTCGATTGAAGAAGTGCCTCAAAATGGGCATGAGACGCGAAG
Seq A exon
CTGTTCAACGTGGACGCGTACCACCCACTCAGCCCGGTCTGGCCGGCATGCATGGGCAGTACCAGATTGCCAACGGGGATCCCATGGGCATTGCCGGCTTTAACGGGCACTCGTACCTCAGTTCCTACATCTCGCTCCTGCTGCGGGCGGAACCGTATCCGACTTCGCGATATGGCCAGTGCATGCAACCCAACAACATTATGGGCATCGACAACATCTGCGAACTGGCCGCCCGACTGCTCTTCTCGGCGGTCGAGTGGGCCAAGAACATACCCTTCTTCCCGGAGCTGCAGGTGACCGACCAGGTGGCCCTGCTCCGGCTCGTCTGGTCAGAGCTCTTCGTCCTAAACGCCAGCCAGTGCTCCATGCCGCTCCATGTGGCGCCACTGCTGGCCGCCGCCGGACTTCATGCCTCCCCGATGGCCGCCGATCGTGTGGTGGCCTTCATGGACCACATCCGCATCTTCCAGGAGCAGGTGGAGAAGCTGAAGGCGCTGCATGTCGACTCCGCGGAGTACTCCTGCCTCAAGGCGATCGTGCTCTTCACCACCG
Seq C2 exon
ATGCCTGCGGCCTGTCCGATGTGACGCACATTGAATCCCTGCAAGAGAAGTCGCAGTGCGCCCTCGAGGAATACTGCCGGACCCAGTATCCCAACCAGCCCACGAGATTCGGCAAGCTGCTTCTCAGACTGCCATCGCTGCGAACGGTCTCCTCACAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003651-'2-6,'2-5,4-6=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.048 A=0.103 C2=0.000
Domain overlap (PFAM):

C1:
PF0010513=zf-C4=PD(68.6=94.1)
A:
PF0010425=Hormone_recep=PU(67.5=71.9)
C2:
PF0010425=Hormone_recep=FE(26.4=100)


Main Inclusion Isoform:
FBpp0303610


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
FBpp0082034, FBpp0082035, FBpp0082036


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
HIGH PSI
Zebrafish
(danRer10)
ALTERNATIVE
Primers PCR
Suggestions for RT-PCR validation
F:
AATCTTTCTTCAAGCGCTCGGT
R:
TTGTGAGGAGACCGTTCGCAG
Band lengths:
302-854
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)