DmeEX6014700 @ dm6
Exon Skipping
Gene
FBgn0035533 | Cip4
Description
The gene Cdc42-interacting protein 4 is referred to in FlyBase by the symbol DmelCip4 (CG15015, FBgn0035533). It is a protein_coding_gene from Dmel. It has 12 annotated transcripts and 12 polypeptides (10 unique). Gene sequence location is 3L:4322491..4364102. Its molecular function is described by: GTPase activating protein binding; lipid binding; phospholipid binding; protein binding. It is involved in the biological process described with 13 unique terms, many of which group under: macromolecule localization; plasma membrane organization; membrane organization; mesoderm development; germ cell development. 36 alleles are reported. The phenotypes of these alleles manifest in: multicellular structure; organism; cell junction; cellular anatomical entity; integumentary system. The phenotypic classes of alleles include: increased mortality during development; phenotype; increased mortality; neuroanatomy defective. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of moderate expression. Peak expression observed within 00-18 hour embryonic stages, during early pupal stages.
Coordinates
chr3L:4322491-4324996:-
Coord C1 exon
chr3L:4324922-4324996
Coord A exon
chr3L:4324284-4324447
Coord C2 exon
chr3L:4322491-4324220
Length
164 bp
Sequences
Splice sites
3' ss Seq
TCCATGGTGAAATCCAGCAGTTC
3' ss Score
-1.39
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
ACATTCCAATGGCAGTGCCGATGACCATCATGATGATGGCGACGACCAGCCCGATGATGCTGGCAGCTTAAGCAG
Seq A exon
TTCGGCAAGTCCCGAGAGTGGCCTTGGCACTTCGCACACATCCCTGCCAGGATCAGGACAGGGCAGCGCCAACGAAAACGCGATTGGCGAGGATACCTACTATGAAACGGAAGTGGAGACCCTTAATCCAGTGGGAAAATGTCGTGCCCTGTATCCATTTGAAG
Seq C2 exon
CCTCCAGCGAGGGTAGCATACCCATGAGTGAGGGCGAGGAGCTGCAAGTGATCGAGATCGACCAAGGAGACGGATGGACGCGGGTGCGGCGGGAGAACAACTCCAATGGCTGGGACGAGGGCTTCGTGCCCACGAGTTACATCGAGATCACGCTCTATGCTTAGGATTAAGTTCATTTTCGGGGCGGGCAATCAGCCGGGCGGTTTTAAATGTTACCTACTCAGCAAACTCTTGCGTATGATCGATTGATTTGTGTACTTTTGTCATAACTTTGCGTTCTGTCGGACAGCCATAACACACAAAACATAACATAACAGACACAACACGCCTAACTTTCACACAACACTGTACATTTGACTTAAGCTAAGTTCGATTCATTTACCCTTCGTATGCTTTGTATATTTACTTTGATTTTAAACGTCATTGATCTTATGGTAGTGCAAGCTATATCATACTATAAATACTATAGTCATATGCACCTACGAGCAGACCTCACCTAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0035533-'23-20,'23-19,25-20=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=0.925 C2=0.753
Domain overlap (PFAM):
C1:
PF0157614=Myosin_tail_1=PD(7.8=34.6)
A:
PF0157614=Myosin_tail_1=PD(2.0=5.4),PF0001823=SH3_1=PU(13.5=12.5)
C2:
PF0001823=SH3_1=PD(84.6=80.0)
Main Inclusion Isoform:
FBpp0300522
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
FBpp0073195, FBpp0112051, FBpp0297231, FBpp0297232, FBpp0297233, FBpp0297491, FBpp0297492, FBpp0300521, FBpp0305747, FBpp0305748
Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CATGATGATGGCGACGACCAG
R:
ATTTAAAACCGCCCGGCTGAT
Band lengths:
258-422
Functional annotations
There are 2 annotated functions for this event
PMID: 14596906
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, mutation analysis, two hybrid, x-ray crystallography. ELM ID: ELMI002056; ELM sequence: DRESPDGS; Overlap: PARTIAL_LEFT
PMID: 22153077
Partially encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, mutation analysis. ELM ID: ELMI002056; ELM sequence: DRESPDGS; Overlap: PARTIAL_LEFT
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Neural diversity
- Neurogenesis
- Neuronal activity
- Splicing factor regulation (brain)
- Splicing factor regulation (SL2)