DmeINT0036244 @ dm6
Intron Retention
Gene
FBgn0003317 | sax
Description
The gene saxophone is referred to in FlyBase by the symbol Dmelsax (CG1891, FBgn0003317). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (3 unique). Gene sequence location is 2R:7806484..7810067. Its molecular function is described by 8 unique terms, many of which group under: kinase activity; catalytic activity, acting on a protein; protein kinase activity; phosphotransferase activity, alcohol group as acceptor; catalytic activity. It is involved in the biological process described with 15 unique terms, many of which group under: tripartite regional subdivision; phosphorylation; cellular component biogenesis; response to bacterium; stem cell population maintenance. 61 alleles are reported. The phenotypes of these alleles manifest in: squamous epithelium; dorsal double row; embryonic head; trichogen cell; integumentary specialisation. The phenotypic classes of alleles include: viable; lethal - all die before end of larval stage; phenotype; increased mortality. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of high expression to a trough of low expression. Peak expression observed within 00-12 hour embryonic stages.
Coordinates
chr2R:7806484-7807201:+
Coord C1 exon
chr2R:7806484-7806598
Coord A exon
chr2R:7806599-7807071
Coord C2 exon
chr2R:7807072-7807201
Length
473 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
GTGCATTTGTTATGTTTCAGCCG
3' ss Score
7.09
Exon sequences
Seq C1 exon
GCTAGAAGTATATCGATAGGTTCCGATAGGCTCGGACAAATAACATTTCTAGCAATGGAGTCCAATATATATTTAGTTTTTCTATTGACGTTTCTGCTGTACAATAATGCCAGAG
Seq A exon
GTGGGCATCAATTAGTGTTAATCAATTACCAAGTGCTTGGTGAAGAGAGTGCGCAAGAGAAATTTCGATTTTATGGGGTTTTAGAGCCACATATAATGCCTTGAAAAGTCACTGAGTGTTTTGGGTTTGTTTTCATATGCTGCGGTTCTGGCCAATTGCGTTGCGTATTTGGCCAGGCCAAGGCGAAAAAAGTGCCCTCGGAATGCTGATTGGTGAAAGAAGCACCTGATGGATCCCACAGAATGTATTATATAAACGGATGTCGTGGGCGTTTGCAGCATAAGTGCATTTTCTCAATGATTTACCCACGCACACCACCGTTCTGTGTGTGTATACAGAACTTGCTGGGGCGCCTGTGTGCATGTGTGTGTGTGTGTTAGTGCTGGTGGCGTTTGTGTTGGTTGGGCCGTCCATGTGTGTACATATGTATATGCTATGTGCATATGGTTTAATGTGCATTTGTTATGTTTCAG
Seq C2 exon
CCGAAATCAGCGATCATCTGCGGGAGGACATACCGGACTTAGACATGGAGCTCTCCTCCGCCTCATCCGCCCATCTCAATGGCAAGGAGCTACCGGCCGTGCCACAGAACTCGGTGCAGACGCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0003317:FBtr0088832:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.530
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0300982

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0087908, FBpp0087909
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:
GCTAGAAGTATATCGATAGGTTCCGA
R:
GCGTCTGCACCGAGTTCTG
Band lengths:
238-711
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)