DmeINT0032497 @ 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:9227785-9229276:-
Coord C1 exon
chr2R:9229094-9229276
Coord A exon
chr2R:9228788-9229093
Coord C2 exon
chr2R:9227785-9228787
Length
306 bp
Sequences
Splice sites
5' ss Seq
TTTGTAAGT
5' ss Score
7.4
3' ss Seq
CTGACCATCCACGATCTCAGGCA
3' ss Score
4.61
Exon sequences
Seq C1 exon
TCATTCAGTGCGTGATGCCAGTGGCGCCGCTCAACGGGCGCATCGGGGGCACCAGCCTGAGCCAGAGGCGCCTCACCGTGGGCGCCCTGGTCACGTTTAGCTGCAACGACGGGCACAGCCTGGTGGGCGAGTCGAGCATCATCTGCACGGAGAACGGACAGTGGTCGCACTCGCCGCCATTTT
Seq A exon
GTAAGTAGACTCGCTACTCACTCACACACTCACTGACATAGACACGTATATGTATATGCGTGCGCTGCGAGAGATTGCCGGCGCACCGCACCGCTCCACCGTTCCACCGATCCTCCTCCTCCTCGTGGGCCCGCTCACAGATCAACCCAATTAATGACTCTTGTGTTGTATTTCCGCCGAACAAACGACCGATTTCGATACCGATCACGAATCATCATTAACATACCTGATACCTGAAACCTGAAACCACCTGATACAATCCGTACACGCACGCATGACATGCCCACTGACCATCCACGATCTCAG
Seq C2 exon
GCAAATCGCAGTGCCCCTATCCCGGCGATCCGCCCAACGGGCTGATAGCGCCGCTCAAGTTCAACTACGACGCCGGAGACTACCTGAGCGTCCAGTGCCGGCCCGGATTTGTCCAGAGTTACGAGGGTCCACCCGAGCGGCCCAAATGCCAGCCGGATGGCCGGTGGTCCGGTCCGATGCCGAAGTGCAAGAGCTACGAGGAGGTGTAACCTCCAGGACCACCAGAGATTGAAGCCAAGGGCCAAGGATTCGCCGCCAAGTCAGCATTACGGGTCCTCCATCTGAGCGGATGCTGTAATTCCGAATGCAGATCGAAACCGAGTGATATTTAGATTAACTTAGTGAGAGGTATCAAAATTAATAGATATTTTATCAGATAGGTTCAATTCAAATCATTGTCTTTCTGTGGCCCACGAATCTTTCAAGAACTCTCCTTTTGAAACTATGTATGTATGTACTCTAAACAGATCAAGTTGATCTTGCACACTCTACAGATATTTGTTCTTCAGATTGAATAAACTTTGCGCTTGCATTTCATTACGAAGTATCCTTGTACTAACACTAACTATTTAATGAAATATATAATCAACATCTGCGTACAGGTATTTATGTATTACGTATTCTGGTTGCAACTAAAAGTTACATAAATGTAAATGTTTAAACGAAAGCAAGCGAAAATCTTACCCACAGTGCGAATAAAAACCAAGAAAAAGCATATAGATATATTATATATATATATACAGATTAACGATTCTATTCCACCATATAAATGTATTACACTGACAGAAATGCGGATTGCAGCAGCAGTTGTTGGACGAGTGTTGATTAGTTAGGAGCTAAGAAATGCCAAGCTAAGTGGCCCTTTAAAGTCATATCCATAAACGATTCCTTGAGAGGCAGAGGAGCACACATATGTAGGTATTGCATAGTGTATTGTAGGCAGCTGCAATCTTTGTGTAAAGTAAAGACCGTTTTAAATAAAATACGATATTGTGTAAAATGC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0010114:FBtr0088607:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=95.2)
A:
NA
C2:
PF0008415=Sushi=PD(0.1=0.0),PF0008415=Sushi=WD(100=84.3)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0087688
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0087687
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:
GGCGAGTCGAGCATCATCTG
R:
GCTCAGATGGAGGACCCGTAA
Band lengths:
345-651
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)