DmeEX0003782 @ dm6
Exon Skipping
Gene
FBgn0000286 | Cf2
Description
The gene Chorion factor 2 is referred to in FlyBase by the symbol DmelCf2 (CG11924, FBgn0000286). It is a protein_coding_gene from Dmel. It has 7 annotated transcripts and 7 polypeptides (4 unique). Gene sequence location is 2L:4876891..4883107. Its molecular function is described by: DNA-binding transcription factor activity; DNA binding; DNA-binding transcription activator activity, RNA polymerase II-specific; sequence-specific DNA binding; protein binding. It is involved in the biological process described with: dorsal appendage formation; regulation of transcription, DNA-templated; adult somatic muscle development; dorsal/ventral pattern formation; positive regulation of transcription elongation from RNA polymerase II promoter. 20 alleles are reported. The phenotypes of these alleles manifest in: embryonic/larval cuticle; epithelium; larva; cellular anatomical entity; supramolecular complex. The phenotypic classes of alleles include: increased mortality during development; flight defective; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages, during late larval stages, during early pupal stages, in stages of adults of both sexes.
Coordinates
chr2L:4881215-4883107:-
Coord C1 exon
chr2L:4882889-4883107
Coord A exon
chr2L:4882636-4882801
Coord C2 exon
chr2L:4881215-4882492
Length
166 bp
Sequences
Splice sites
3' ss Seq
AAATAGAATTCCGAATTTAGAAT
3' ss Score
1.5
5' ss Seq
TTTGTGATT
5' ss Score
-6.21
Exon sequences
Seq C1 exon
ACGTTGCCATCGTAGTTTCGATGCCAGTAATCGATACTTTTTGTTGTAGTTGTACATTTTTCGCCAAAAATAATAATAAAAGTGAAAAATTTTTTTTGTTAATATACGTTTATTTGTTGTACAAAGGAGAAAATGTTATTAAACTGATTGGCCGCCCCAGCATTTTCGTGACCCCCGCTCCAAATACAACAAAATCGAACGGCCGCCAGCAACAACAAG
Seq A exon
AATATGACAGACTGAAAAAAATTTTCAATTCGAACGCATTGCCGCTGCTGCTGCCCGCTCCTCTTCTTCTTCATCTCCTCCTCCTTCTTCCTCTTCTTCGCCAGCCGCTGTGGGGGGACATTGGGGGTCAAATGCAGAAGATCGGGACTGAAGATTTCGTGAATTT
Seq C2 exon
CGCATATCGCCTTCTTTAACCGCCAATTGCTCCTGCTCCTGCCCACTAACCAAGTCAAACCAAAAGAAGCGATTACTCTCCAAGCGCCAGCGGAAGTGAAATGATAAAGTCCACCACGAATCCACAGGAACAGCGTCTGCCACGCCCCGAGGATCAGTCGCCAGCGCCGCCGCCGCCGCCCCCCTCCTCAGCCACCACCTCCACCGCCGCCCCAGCCACGCCCACGCACCAAGTGGCCACCGTGATAGCCAACATGGACACCCTGAAGACAGCCTTTCTGCCCAATCTCAGCATGGACCCCAATGTGCACGTGTCGCCGCACTATTGTCCCATGTGTCACCAGCAGTTTGAGCGACCGCAGCACGTCGCGGATCACATGCAGCTGTGCCACGGGATCACGCTGAACGCCCAGGGAGCCATTGCCACGCTGGACGGCGGTCATCCGCAGGCACAGCAGCACCCCAAGCTCAGCCACCCCTGCTTCAATTGTGATGAAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0000286_MULTIEX1-1/3=C1-2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. ATG)
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.618 C2=0.612
Domain overlap (PFAM):
C1:
NA
A:
PF127562=zf-C2H2_2=WD(100=20.1),PF057587=Ycf1=PU(86.6=52.4),PF134651=zf-H2C2_2=PU(39.4=3.3)
C2:
PF127562=zf-C2H2_2=WD(100=23.1),PF096065=Med15=WD(100=62.6),PF057587=Ycf1=PU(85.5=60.5),PF134651=zf-H2C2_2=PU(39.4=3.8)
Main Inclusion Isoform:
FBpp0293426
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
ACGTTGCCATCGTAGTTTCGA
R:
TTGGCGGTTAAAGAAGGCGAT
Band lengths:
245-411
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)