DmeEX0002311 @ dm6
Exon Skipping
Gene
FBgn0259244 | CG42342
Description
This gene is referred to in FlyBase by the symbol DmelCG42342 (FBgn0259244). It is a protein_coding_gene from Dmel. It has 13 annotated transcripts and 13 polypeptides (12 unique). Gene sequence location is 3R:16502770..16571363. Its molecular function is described by: extracellular matrix structural constituent. It is involved in the biological process described with: extracellular matrix organization. 29 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; viable; lethal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of very low expression. Peak expression observed within 06-12 hour embryonic stages.
Coordinates
chr3R:16565939-16569193:+
Coord C1 exon
chr3R:16565939-16566001
Coord A exon
chr3R:16569035-16569061
Coord C2 exon
chr3R:16569140-16569193
Length
27 bp
Sequences
Splice sites
3' ss Seq
TTTTCTTTCATTTGCTGCAGGGT
3' ss Score
10.74
5' ss Seq
AAGGTATTT
5' ss Score
7.64
Exon sequences
Seq C1 exon
GGTCCGATGGGCATGAGAGGCGAGTCAGGACCTTCTGGACCCTCTGGAAAGGCTGGCATACCG
Seq A exon
GGTCCTCCGGGCTTGGATGGCATGAAG
Seq C2 exon
GGCGCCCAGGGCGAGACGGGACACAAGGGTGAGCGCGGGGATCCGGGACTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0259244_MULTIEX1-12/12=11-C2
Average complexity
C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(14.3=38.1),PF0139113=Collagen=FE(29.4=100)
A:
PF0139113=Collagen=FE(11.8=100)
C2:
PF0139113=Collagen=FE(25.0=100),PF0139113=Collagen=PU(19.7=77.8)
Main Inclusion Isoform:
FBpp0292667
Main Skipping Isoform:
FBpp0289172
Other Inclusion Isoforms:
FBpp0307755, FBpp0307756, FBpp0307757, FBpp0307758
Other Skipping Isoforms:
FBpp0293542, FBpp0293543, FBpp0307753, FBpp0307754
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:
GGTCCGATGGGCATGAGAGG
R:
CTCACCCTTGTGTCCCGTCTC
Band lengths:
96-123
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)