DmeINT0032494 @ dm6
Intron Retention
Gene
FBgn0010114 | hig
Description
The gene hikaru genki is referred to in FlyBase by the symbol Dmelhig (CG2040, FBgn0010114). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (4 unique). Gene sequence location is 2R:9227785..9247249. Its molecular function is unknown. It is involved in the biological process described with: synaptic target recognition. 20 alleles are reported. The phenotype of these alleles manifest in: central nervous system. The phenotypic classes of alleles include: behavior defective; phenotype; locomotor behavior defective; increased mortality during development. 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 within 12-24 hour embryonic stages, during early larval stages, during late pupal stages, in adult male stages.
Coordinates
chr2R:9230312-9231180:-
Coord C1 exon
chr2R:9231106-9231180
Coord A exon
chr2R:9230649-9231105
Coord C2 exon
chr2R:9230312-9230648
Length
457 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
GCGTTTTGCTCCTTCTGCAGAAT
3' ss Score
9.62
Exon sequences
Seq C1 exon
ACACCGATCCCACCAAATCGCGGCTGGCGTAAAACGCGATTATCCAAATCGACACTTCTCTCAAATACAGAAATT
Seq A exon
GTGAGTCGTCGTAGTAGCTGTGTAGTATTGTGTAGAATTGCACCCAAAAGAAACCCACAGGCAAAGCACCGACACACACAGAAACACCCAAAAGATACCACCCACAAACACCCACCACTAGCAGGGAGCTAACAGATAAAAGATACAGTTCACAAGATACAACATAGTACAAGTTGAACGTAACAAGTTTCAACATACCAGATACAGATACCCACACTCAGATACTCGCACACGGAGAATGTTAAATGCGAGGACTGCACGCCAGAGCAACCAGCGCCACTTTCCCAGTTCGCGGGAACGTCTGATTATTTGATAACTTTCTCCACTTTCTCTCTCTCTCTCTTCCTCTTTCTCTCGGTGCTATCTCTCCCCCCATCCCGACCTCCAAAATACCTGCAAAATAAATGCACCCTTTCGCTTTTCCTCACCGCTTGCTTGCGTTTTGCTCCTTCTGCAG
Seq C2 exon
AATGTGGGATGGGATCTGCCGCACGGACACTCTCTGCAGGCACGCTGCCAGGAGCTGGGCATCTACAAGCTCCTGGGAGAGTCGAGGGTCCTCTGCTCCAACGGCCTGTGGGCACCGCGGATGCCCAGCTGCGTCCCCACCACGGTGCTGACCAACTACTCGGAGGACAGCGCCCCATCGATCCGCATCAAGATCTTCAATGGCTCCCACTCCTTTGAGCCATCCGGCGTCATGGCCGTTCCGCCGCACAGCACAGTGCTCATGGACTGCATGTATCCGAGGGTTAGGGGCACTCCGGAATGGAGCTGGACCAGCTGGTACATGCAGTATTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0010114:FBtr0088607:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0767911=I-set=PU(47.4=31.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0087688
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0100157
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:
ACACCGATCCCACCAAATCG
R:
ATGCAGTCCATGAGCACTGTG
Band lengths:
347-804
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)