DmeINT0032061 @ dm6
Intron Retention
Gene
FBgn0004656 | fs(1)h
Description
The gene female sterile (1) homeotic is referred to in FlyBase by the symbol Dmelfs(1)h (CG2252, FBgn0004656). It is a protein_coding_gene from Dmel. It has 10 annotated transcripts and 10 polypeptides (5 unique). Gene sequence location is X:8037808..8061436. Its molecular function is unknown. It is involved in the biological process described with: terminal region determination; dendrite morphogenesis; positive regulation of transcription elongation from RNA polymerase II promoter; negative regulation of transcription, DNA-templated. 69 alleles are reported. The phenotypes of these alleles manifest in: dendrite; metathoracic segment; embryonic/larval cuticle; embryonic/larval spiracle; egg. The phenotypic classes of alleles include: phenotype; increased mortality; some die during P-stage; increased mortality during development. 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 00-12 hour embryonic stages.
Coordinates
chrX:8059867-8061436:-
Coord C1 exon
chrX:8061264-8061436
Coord A exon
chrX:8060159-8061263
Coord C2 exon
chrX:8059867-8060158
Length
1105 bp
Sequences
Splice sites
5' ss Seq
AAAGTACGT
5' ss Score
7.99
3' ss Seq
TTTTGTTTTTATTTTTACAGTTG
3' ss Score
9.73
Exon sequences
Seq C1 exon
AAAACGCCTGCTTATATCGATGACAGCCTTGTTTTTGTTGCGCTTACGTTACGAAATTAATGTAAAGTAGCCGACGAATCTACGTTCTACCAGTATAAATGGATTAAAACTAACAACAGCATAAGTGTAAACTGCTGGTGAATTTCCCAAATAGCCATATGAAAAAGCTAAAA
Seq A exon
GTACGTGCAAATGGTTGAGAAAAGGAGAGAACGAAAGCCACTATGAGTTTGCGAGAGTATGTGTGACTACTTTGCTCTCTGGCTCTCTCTATCACACACACTCGCACAGAACGCTCTTCTCACATGCTCTCTCTCGGCCGGTAGCTCTAGCTGTCCCGCTCTCGATTTATCAATAAAAGCAGTGCGTTAGAGCGGCATAGCCGCATGTACCAAGCGCGTGCGCCTCGTGCCCGTCGGCTGTCCATGTGTGCGTGTGTATTCGCATTTTCAGTAATTTCGAAAAAAAATTTTGTATATTTGATGGCGACTCAGAAGAAACTCGCGCGTTTGTCGAAAAATCGTAGCGCGTACGTATATATCGGTGTGTAGAAATTACTAAAAATTGTGGTAAAAAATGGCAAAAATTATATAAATTTGTGTTCGAAGTGGAGTGCTAATTGCGGGGGATCAGATGCGAATGGAAAAATGTTGAAATTTATAAGATTTTAGCGCCAAAAAATGCATTTGAAAAATGTGAGACTTCAATGGACATGACAAATTTTTTTTTTCATTTTTTTCGGTGGTGGAACAAAAGCGAACGAAAGAGGAGCAAGAAGCAGAAACGTTCGTCAGTGTGTGTGCGTGTGTGTGTCGAGTGAGGGGGCATGAGCATGAACGTGTGTAGTCACCAAGTGAATAATATTAACAAATAAAAGAAGAAAAAACGAAAAAAGAGGAATACACACGCAGAAGCGCGCGAAAAGTTTCACTCGAAATGAGAAAAAACAAAAGCAAAATATACTAGCGCTAGTTGATTTTCGCTAGCAAAAAGAAACCGACGTGCACATTGAAAATCTATAATTTTGTCGATTTTGTTATTGTATTTTTTGATTTTGCGGTTTTGCGGCGCCGTCGGTAACGTTAGCATACCGTTACGTGGCCTACGTAGCGTGGTGACGTACAGAAGACGCTTACGTTGTGGGTTACGTTACATTTGTCGCTGGGGATTTTACTCTTTCTCCCTCTCTTTACGCCACACTCATTCTCTGGCGCGCGCAAATCCAAAAATCTCGAGAAAAAAAATAGTGCCCGATGTGACCAATATTTTTTGTTTTTATTTTTACAG
Seq C2 exon
TTGCAACTTTTTAACAATCGTGTACAATCTGTATGTTGTATATGTTCAATTCAAAATTCAGCAACAATAGCAACAACGCAATTCAGCAACAACAACAAACAAAACCGACAAGCTAAACTTGGCTAAGACAAAATCAACATCCAGCGGCAGCGCGGCCATAAACAAAGCCAAAATCAAAAGTCATTCGGATATATACATATATTCGCCCATAATAGCGAATAAACAGTAACAGAACGAGTGGATTTAACGAAACAACAAAAAGAAAAGAAGAACGATAAAATCCAAAGGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004656:FBtr0071118:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
ACGCCTGCTTATATCGATGACA
R:
TTTGGCTTTGTTTATGGCCGC
Band lengths:
342-1447
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)