DmeINT0032084 @ dm6
Intron Retention
Gene
FBgn0001078 | ftz-f1
Description
The gene ftz transcription factor 1 is referred to in FlyBase by the symbol Dmelftz-f1 (CG4059, FBgn0001078). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is 3L:18750607..18801309. Its molecular function is described by 9 unique terms, many of which group under: binding; heterocyclic compound binding; protein binding; DNA-binding transcription factor activity; DNA-binding transcription factor activity, RNA polymerase II-specific. It is involved in the biological process described with 19 unique terms, many of which group under: metamorphosis; cell death; plasma membrane bounded cell projection morphogenesis; homeostatic process; cell maturation. 85 alleles are reported. The phenotypes of these alleles manifest in: intracellular non-membrane-bounded organelle; larval dorsal multidendritic neuron ddaD; developing material anatomical entity; parasegment 10; parasegment 2. The phenotypic classes of alleles include: phenotype; increased mortality; cell death defective; lethal - all die before end of larval stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of very low expression. Peak expression observed within 12-24 hour embryonic stages.
Coordinates
chr3L:18754314-18754633:-
Coord C1 exon
chr3L:18754577-18754633
Coord A exon
chr3L:18754513-18754576
Coord C2 exon
chr3L:18754314-18754512
Length
64 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TCACATTATTATTCATGCAGAGT
3' ss Score
5.35
Exon sequences
Seq C1 exon
CTTCGATTCTGGCACACATCCATCGAGCACAGCCGACGCGCTAATCGAGCCATTAAG
Seq A exon
GTGGGTTTTTGCTGGCGTAAATTGAAGTCTTGAGATCCATTTAATCACATTATTATTCATGCAG
Seq C2 exon
AGTCTCACCGATGATTCGTGAATTTGTGCAATCTATTGACGATCGGGAATGGCAGACGCAACTGTTTGCCCTGCTGCAGAAGCAAACCTACAACCAGGTGGAAGTGGATCTCTTCGAGCTGATGTGCAAAGTGCTCGACCAGAATTTGTTCTCGCAAGTAGACTGGGCACGGAACACCGTCTTCTTCAAGGATCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0001078:FBtr0075087:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.460 A=NA C2=0.006
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010425=Hormone_recep=PU(22.0=62.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0074853

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0074854, FBpp0293169, FBpp0312453
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:
TTCTGGCACACATCCATCGAG
R:
CTTCTGCAGCAGGGCAAACAG
Band lengths:
133-197
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)