DmeALTD0008182-1/3 @ dm6
Alternative 5'ss
Gene
FBgn0027339 | jim
Description
The gene jim is referred to in FlyBase by the symbol Dmeljim (CG11352, FBgn0027339). It is a protein_coding_gene from Dmel. It has 8 annotated transcripts and 8 polypeptides (5 unique). Gene sequence location is 3L:22789233..22835194. Its molecular function is described by: RNA polymerase II cis-regulatory region sequence-specific DNA binding. It is involved in the biological process described with: regulation of transcription, DNA-templated; regulation of chromatin silencing; dendrite morphogenesis. 46 alleles are reported. The phenotypes of these alleles manifest in: larval dorsal multidendritic neuron ddaC; embryonic/larval hemocyte. The phenotypic classes of alleles include: neuroanatomy defective; viable; lethal; fertile; lethal - all die before end of pupal stage; some die during pupal stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of extremely low expression. Peak expression observed during late larval stages, at stages throughout the pupal period.
Coordinates
chr3L:22799251-22800784:-
Coord C1 exon
chr3L:22800025-22800784
Coord A exon
NA
Coord C2 exon
chr3L:22799251-22799448
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
TCAACACGTCCCATAAACAGACG
3' ss Score
5.02
Exon sequences
Seq C1 exon
CGGTGGCGGCGGGGCCGGGGGTGGAGAAGCCTACGCGCTTCCCGAAATGCTGCCGGCTCAGCAAAACGGTCAGCAGAACGCCGGTCCAGCGAACACCAATGCCAACGAAGGCGGTGCGGGAGCCAACGGGAGCGGAGGTGTAGGCGGTGCGACGGGAGCGAGCGTGGGAGTGGGATCGGTGGGCGTGACGAGCGGCGGAAGGACGGGCAACGGACCAGGACGCCCGCACAAGAACAAGCCACACAGCGACCTGCGGCTCTTCAAGTGCCTCACCTGCGGCAAGGACTTCAAGCAGAAGAGCACGTTGCTGCAGCACGACCGCATCCACACGGACGCACGACCCTTCCCGTGCTCCGAGTGCGGCAAACGCTTTCGCCAGCAGTCGCACCTTACACAGCATTTGCGCATCCACGCCAACGAAAAGCCCTTCACCTGCCCATACTGCTCGCGCAGTTTTCGGCAGCGCGCCATTCTCAACCAGCACATACGCATCCATTCGG
Seq A exon
NA
Seq C2 exon
ACGTCTCGCCACACCTTATTTTCAAAAACGGGCCGCACCCGACCCTGTGGCCCTCGGATGTACCCTTCCCTGGCGAGGACAACGACACTAAGGGCGATATCGCCGGCACGGGCGGCGGCTACCACGACGAGGACTCCCAGGGAACGCCGGATGGCAGCGGTGGCATGCACTACCCCTCTTACTTCAAGGACGGCAAGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0027339-14-8,15-8,16-8-1/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.698 A=NA C2=0.736
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=WD(100=10.2),PF134651=zf-H2C2_2=WD(100=10.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0305413
Main Skipping Isoform:
FBpp0303109
Other Inclusion Isoforms:
FBpp0305415
Other Skipping Isoforms:
FBpp0078231, FBpp0099541, FBpp0293522, FBpp0305414
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:
CCAACGAAAAGCCCTTCACCT
R:
CTTAGTGTCGTTGTCCTCGCC
Band lengths:
179-247
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)