DmeEX0002308 @ 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:16550207-16552466:+
Coord C1 exon
chr3R:16550207-16550286
Coord A exon
chr3R:16550633-16550740
Coord C2 exon
chr3R:16552361-16552466
Length
108 bp
Sequences
Splice sites
3' ss Seq
AAACATTTCTCGTTATCCAGGGC
3' ss Score
5.62
5' ss Seq
AAGGTAAGT
5' ss Score
11
Exon sequences
Seq C1 exon
GTCCTCCAGGTCCGCCGGGTCCACCGGGAAAACGAGGGAAGCGCGGCAAGAAAGGAGATAGCGGCGAGAAGGGCGATCCG
Seq A exon
GGCCTGAATGGCATCAGTGGGGAGAAGGGCGCGGCGGGCAAGCCCGGTGACAAGGGACAGAAGGGCGATGTCGGCCACCCCGGAATGGATGTCTTCCAAACCGTGAAG
Seq C2 exon
GGCGACAAGGGCGATCGAGGCGATCGTGGACTAACCACAACCATCAAGGGTGACGAGTTCCCCACTGGCATCATCGAGGGTCCGCCGGGACCAGCGGGACCACCTG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0259244_MULTIEX1-1/12=C1-5
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(43.3=100)
A:
PF0139113=Collagen=PD(48.3=80.6)
C2:
PF0139113=Collagen=PD(27.7=63.9),PF0139113=Collagen=PU(31.1=52.8)
Main Inclusion Isoform:
FBpp0292667
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0289172, FBpp0293542, FBpp0293543, FBpp0307751, FBpp0307752, FBpp0307753, FBpp0307754, FBpp0307755, FBpp0307756, FBpp0307757, FBpp0307758
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CACCGGGAAAACGAGGGAAG
R:
CAGGTGGTCCCGCTGGTC
Band lengths:
165-273
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)