Special

DmeALTD0009384-2/2 @ dm6

Alternative 5'ss

Gene
Description
The gene twin of eyeless is referred to in FlyBase by the symbol Dmel oy (CG11186, FBgn0019650). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is 4:989725..1007922. Its molecular function is described by: RNA polymerase II regulatory region sequence-specific DNA binding; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with 8 unique terms, many of which group under: system development; anatomical structure development; multicellular organism development; tissue development; eye-antennal disc development. 35 alleles are reported. The phenotypes of these alleles manifest in: embryonic/larval brain; eye-antennal disc; head sensillum; presumptive embryonic/larval nervous system; presumptive embryonic/larval central nervous system. The phenotypic classes of alleles include: phenotype; lethal - all die before end of P-stage; increased mortality during development; lethal. 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, at stages throughout the larval period, at stages throughout the pupal period.
Coordinates
chr4:998623-1004373:+
Coord C1 exon
chr4:998623-998693
Coord A exon
chr4:998694-998705
Coord C2 exon
chr4:1004158-1004373
Length
12 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TCGTGAAAAATTTTTAATAGGTT
3' ss Score
4.11
Exon sequences
Seq C1 exon
AATTTGAAAGAACACATTATCCCGATGTTTTTGCGCGAGAAAGGCTTGCTGATAAAATTGGTTTGCCAGAG
Seq A exon
GCACGTATTCAG
Seq C2 exon
GTTTGGTTTTCAAACCGACGAGCTAAATGGCGCCGAGAAGAAAAAATGCGAACTCAGAGACGATCGGCCGATACCGTGGACGGCAGTGGTCGAACCAGCACGGCAAATAATCCTTCAGGAACAACTGCATCTTCCTCCGTCGCAACGTCAAACAACTCGACTCCAGGGATTGTGAACTCAGCAATCAACGTTGCGGAACGAACATCATCTGCATTA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0019650-9-6,10-6-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact

Protein isoform when splice site is used (Ref)

No structure available
Features
Disorder rate (disopred):
  C1=0.692 A=NA C2=0.860
Domain overlap (PFAM):

C1:
PF0004624=Homeobox=FE(43.4=100)
A:
NA
C2:
PF0004624=Homeobox=PD(19.3=12.9)


Main Inclusion Isoform:
FBpp0088249


Main Skipping Isoform:
FBpp0308592


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
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:
TATCCCGATGTTTTTGCGCGA
R:
TTCTTCTCGGCGCCATTTAGC
Band lengths:
96-108
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)