DmeINT0012820 @ dm6
Intron Retention
Gene
FBgn0034137 | CG4945
Description
This gene is referred to in FlyBase by the symbol DmelCG4945 (FBgn0034137). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (3 unique). Gene sequence location is 2R:16566023..16570120. Its molecular function is described by: ATP binding; protein serine/threonine kinase activity. It is involved in the biological process described with: peptidyl-threonine phosphorylation; peptidyl-serine phosphorylation; mesoderm development. 8 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: viable; fertile. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 12-24 hour embryonic stages, during early larval stages, at stages throughout the pupal period, in stages of adults of both sexes.
Coordinates
chr2R:16566023-16566992:+
Coord C1 exon
chr2R:16566023-16566277
Coord A exon
chr2R:16566278-16566768
Coord C2 exon
chr2R:16566769-16566992
Length
491 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGC
5' ss Score
2.09
3' ss Seq
CGCCCGCCTTGTATACAAAGTGT
3' ss Score
3.59
Exon sequences
Seq C1 exon
CAGAACCGAGAGCAGTTGGCAACGAGCGGTCGTGTACTACGGATGCGTGAACGACCAATCTGCGGATTTCGTCTAAAAGTGCAGCCGTTTGTTTAAATACATACAAAATTACATATGCGTGTAGAAGAAGTCAGGGCACTTAAGGATTTTCGCTAAAGTGCGTGTGTCTACGTTACCGCTGGACGAATTCTTTGCGAATCTACGCTGGCGAAAAATAAGAATTCCGAAACAATCGCAAAGGTTTTTATATAAGAG
Seq A exon
GCAAGCGGGCATTATTTTTAATTTAGCTGTTGATATTATGCATAAAGCGAAGAGAGAAAACAAACATCAAAACAGAATAGAATCAGCGAAGCCGGGAGAGTGCCGAGAAGAATTCTACGGCCTGGTTCTGAAATCTTTTTTCCTCAAATTCCGACCGTGTGTGTACGTGTCAAAATATTTATACGCGCACACGCTCCACGGATTATTTGTTTGGTGAATTTCCACCAGGCACAGTCTGCATATATCTATCTACATATGTCCGTTTACCAGGAAGCGAATATACAAATCCCAATTCAGCCGATCAATTAATCTCTTAATTTACTTTAGCCGCGTGCAGGAACAGCAACAAAAGATACATCCATTAATGCAGATACTAGCGCGTATAAAATAAAGGAATCGCACAGATATAGAAATGTTTTCCTTTGGTGTTTCTGCTGCTGTTTCTGCTGCTGTCGCTATAAATATTTACAACGCCCGCCTTGTATACAAAG
Seq C2 exon
TGTAAATATGTAGATACAATCTGCTAGATACATTCGCGTACATAAACTGTTTCAATTGTTTTATTGGCCCGCTCATGGACAAAGCTGCGCAGAATTGAAAGTGAATCAAGTGCTATGAACCAGTCCAGTAAATAAAAAACTGACTTGCAACCACATAAACAGCCAAAATGTCTAAGAAACCACGTGGAAACATTCACAAGATACGAGAGTTCGAATTGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034137:FBtr0087098:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
FBpp0086247
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0086245, FBpp0086246, FBpp0309068
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:
GGATGCGTGAACGACCAATCT
R:
ACTGGACTGGTTCATAGCACT
Band lengths:
344-835
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)