DmeINT0032064 @ 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:8051695-8055893:-
Coord C1 exon
chrX:8054123-8055893
Coord A exon
chrX:8053295-8054122
Coord C2 exon
chrX:8051695-8053294
Length
828 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
TGGGTCATTCTGAACCACAGGAT
3' ss Score
4.9
Exon sequences
Seq C1 exon
TGCACAGACATTGCTGAGCATGAAGCAATCACTACGGACCACTACACAATTTTATCCCTTGAACAAGAAGAGATTCTTATCAAAAACCAGAACAGAAGCACCAGGATCAGGAGTTGAAAAAACGATAGGCGGCGGAGGATTACCAGGAGTAGGAGTCGCAAGAACAGCAGGAGAAGGCGTAATCAGTCGCAGGAGGAGGAGGTGGTCACCGGCCACATAAGACCAGTTCCCCCCCCTAAACCCACTTTCACCCCCCCTACATACCCTCTAACGAAGGAATCGCAAGGAGGATCAAATCAGTGGAAAAGGAGGAGAGACGGAGGCGGCCCGTGTGTGTGTGTGTGTGTGTGTAGGTGGAGTGTGTGTGTTGGCCGTCTCAGTCGGATAACCATCAACCCGGATCCTTAATCCCAAGACACAAATCTCAAACTGAAGCACCAGAACCACCACAAGAACCACCACCACCATGTCGTCCAGTGAGCCACCGCCTCGTTACGAGCCACCCGTGGAGCCAGTCAATGGCATTGTACAGCCACCGGTGATTCCACCAGCGGAGCGGCCCGGCCGCAATACGAACCAATTGCAATATCTGATCAAGACGGTGATGAAGGTGATATGGAAGCACCACTTCTCGTGGCCCTTTCAACAGCCCGTCGATGCCAAGAAGCTCAACCTGCCCGACTACCACAAGATCATCAAACAACCCATGGACATGGGTACGATCAAGAAGCGGCTGGAGAACAACTACTATTGGTCCGCCAAGGAGACCATACAGGACTTCAATACGATGTTCAACAATTGCTATGTCTACAACAAGCCCGGCGAGGATGTAGTGGTTATGGCCCAGACGCTCGAGAAGGTCTTCCTGCAGAAGATCGAATCGATGCCTAAGGAGGAGCTTGAACTGGAGCCGGTCACGGCCAAGGGTGGCAAAAAGAAGCAACGGGCGCCGGCTACGCCCAAGTCATCGTCGGGTGGCGCTGGAGCATCCACCGGTTCTGGTACATCCTCGGCAGCAGTTACCAGCGGACCAGGTAGTGGCTCCACCAAGGTGTCAGTCGCTGCCTCATCCGCACAACAGTCCGGCCTGCAAGGAGCGACGGGAGCAGGCGGTGGATCTTCAAGTACACCGGGAACTCAGCCGGGTTCCGGTGCGGGAGGAGCGATCGCCGCCCGACCCGTATCCGCCATGGGCGGCACGGTTTCATCGACGGCCGGCGGTGCACCGTCCATACCACCGATTAGCACAATGCCACCGCACACGGTACCCGGCAGCACCAATACGACGACGACAGCGATGGCTGGCGGCGTTGGTGGGCCAGGTGCAGCTGGAGCCAATCCCAATGCTGCCGCCCTGATGGCTAGTCTTCTGAATGCGGGCCAAACGGGCGCCTATCCCGGTGCGCCCGGCCAGACGGCGGTCAATAGCTCCTCGCTTCTAGATGGCAGTACAGCCGCAGTAGCGGCGGCAGCAGCAGCGGCTGCGGCGGCGGCGGCGGCGGCAGGAGGTGCAGCGGGAGCCGCTGGAGGAGCAGGGACAATACCAGCAGTTGCCGTCAATGCCGCTAACGCCGTTCAGGCCTATGTGAATGCGGGCGTGAGCGTCGGAGTGGACGCCGTGATACCGCCTCAGCAGCCCGCCAAAATAAAGAAGGGTGTCAAACGGAAGGCGGACACAACAACGCCGACGGCCAATGCCTTTGAATCCCCGTACACGCAAATGGACTCCAAATCGGCCAAGATTGCGACGCGGCGGGAGTCGAATCGTCAG
Seq A exon
GTAATTGGCAAGAAGGTAAGAGTAACGGGCATCGCCAGTCGTATAAGTATGATCATAGTCCCTCAAGAGCTCGCACATATAAGTTTATATTCAGGAGTGTATTTTTTTTTGGAGTTCACACAAAGTGTGCCAATCTATTAGATCAACTAGATTGATTCAAAAGCGTGAATTTGTATTTAGTTTTAAAGTCGTAATTGTCACACCGACTCTTCTTAGTTTAATTAAAATTATCATTCAATTAAAGCTCCTGTTTTGCATTACTTTTGATGTATCAAGCTCATATCTCGGTCAGACTGATCATTTGAATAATTTCCTTTGCAATTACAATAATAACCAATCCAAATGCACAACAACAATCGATCAAATCATACACTATACGCCGTCCTGCCTTTTACTCGAAAGCCATCTCATAGATTTGTAAATAAATCGAAATACGTGAGTGGGGATTTGATTTGACCTACAACATATATGTAATTATATAGAGTCGAATTTCATCCTCATGATCGGTAATCATTTTGTCACAATGACATGCGAAGGGGATTTAAATTGACCTGCGATTTCAGGCGTTAAGTTCCATTGGCATGATCTGCAATCATTTGTTTTGGAATCATTTGATTTATTTCGATGCTAACCCCATGCTGCTTTTTGCTCGTTTTATTTTCTTTTTCTTTTGCGTTGATTTTGTTTGCACTCAACCAACCAACCAATCAATCGATCGATCAAATCAACACCAACAACCACACCAATCAATCAACAACACCAACAACAACAAACCACAAATCAACCAAATCATCAAAAACCGAAACGATGGGTCATTCTGAACCACAG
Seq C2 exon
GATCTTACATTCCAGGGCTCGGGATACAATATGTCGCCGCTAGGCGTCTCCGGAGTGCCCGGACTTGGCGGTCTAGTTGCCGGCGGCGTGGCTGGTGTTGCGGTGGCCAAGAACAAGGAGAAGCTGTCGGATGCGCTCAAGTCGTGCAACGAAATCCTCAAGGAGCTCTTCTCGAAGAAGCACTCGGGCTATGCTTGGCCATTCTACAAGCCAGTGGACGCGGAAATGCTTGGCCTGCATGACTACCACGACATCATCAAGAAACCAATGGATCTGGGCACAGTCAAGCGGAAAATGGACAATCGCGAGTACAAGAGCGCGCCGGAATTTGCCGCCGACGTGCGATTAATATTCACCAACTGCTACAAGTACAATCCGCCAGATCATGATGTTGTGGCCATGGGTCGCAAGCTGCAAGACGTATTTGAGATGCGCTATGCCAACATCCCCGATGAGCCGGTAGCCAATGCGGCCCACCATCACGGACATGGCCACGGGCATGGTCATGGCCATGGCCACGGTCACGGGCATGGTCACGGACATGGTCATGGTCACGGATACGGCGGCTCCTCCTCACTCAAGCACGATGCCAGCGATTCGTCCAGCGAGGACTCCAGCGATACCGAAAACGAATCCAACTCGGATGAGGAGCGGAGCGCTAGGCTGAAGATGCTCGAGTCCAAGCTGCTCGGTCTGCAGGAGGAGATCCGTAAGCTGTCAGAGGAGGCCTCCGCCAAAAAGAAGGCGAAGAAAAAACTCAAGGAAAAGAAAAAGTCAATAGGCGGCGGATCAGGCTCTGGTTCGGCTTCGCACCATTGTCACGCCACGGGCGGCGGTGCAAATGCTGGCGGAGCAGGCGGTCCCGGATCAGGCGGCCATGGGAGCGTTTCCGTGCCAGGCGGTGTCGGGTCCTTGGGTCCCGGTGGAGCGGGCGGCGCTAATCTCAACGCGCTGCTCGGTGGCTCATTGGTTGGCCATGGCGGAGCGGCCGTCGCAGGAGGCGTTCCCAATGTGGGTGCGTTGCACAGCCAGGTTCACGACGTGGCCATGGCCTTTAGCCAGATGGCGGGCGGCGGTGCCGCGGCCGGTGCTGGCTTTGGTGCCGGTGTGACAGCAGCAGGAGCATCGTCGGGCGGCAAGGCGGGCACACTGGCCGGCGCTCTGGCAGCGGGCGCAGCGGCAGGTGCCGGCGGTACGACGGCTGGCAGCGGCAGCAGTAAAGGTGCTAAGAGCAAGGGCGGACGTGGCGCAAAGGGCAGCGGAGCCGGCGGCGTTGGTGCCAGCAATAATGCCGCTGCGGGCAATGCGGCTGGTGGCGCAGCGGGAGCTGCAGCGGGCGCTGGATCTGTTGGAGGTGTTGGCGGTGCAGGAGCAGCGGGCGGCGGCAATGCCTCCAAGCGGGCCAAGGGCAGCAGTTCGGCGGGCGCTGGCGGTGGTGTTGGTGGCGCGAATGCCAGCGCCGGTGGCGCCGGCGCACGCGGCAGCAGCAAGAAGAAGCCTAGCCAGGTGATGAACTTTGACTCCGAGGAGGAGGACACGGCCAAGCCAATGTCGTACGATGAGAAGCGCCAGTTGTCGCTCGACATCAACAAGTTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004656:FBtr0071118:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.517 A=NA C2=0.529
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=WD(100=19.8)
A:
NA
C2:
PF0043920=Bromodomain=WD(100=16.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0071074
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0071073, FBpp0089297, FBpp0089298, FBpp0089299, FBpp0290524, FBpp0305500
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:
CTTTGAATCCCCGTACACGCA
R:
GACTGTGCCCAGATCCATTGG
Band lengths:
358-1186
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)