DmeINT0016530 @ dm6
Intron Retention
Gene
FBgn0038365 | CG9593
Description
This gene is referred to in FlyBase by the symbol DmelCG9593 (FBgn0038365). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3R:15802275..15803653. Its molecular function is described by: transmembrane receptor protein tyrosine kinase activator activity. It is involved in the biological process described with: negative regulation of apoptotic process. 5 alleles are reported. No phenotypic data is available. The phenotypic class of alleles includes: viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of low expression to a trough of very low expression. Peak expression observed within 00-12 hour embryonic stages, at stages throughout the larval period, at stages throughout the pupal period, in adult male stages.
Coordinates
chr3R:15802340-15803653:+
Coord C1 exon
chr3R:15802340-15802769
Coord A exon
chr3R:15802770-15802826
Coord C2 exon
chr3R:15802827-15803653
Length
57 bp
Sequences
Splice sites
5' ss Seq
TGGGCAAGT
5' ss Score
2.48
3' ss Seq
CACCCGGTGACATTTTCCAGACT
3' ss Score
4.1
Exon sequences
Seq C1 exon
AAGTTTTCATTGCTTTTTCTGCTGGCCTGGAGCTGTGTGTTTCTGGGAAGCACGGGTTCTCTAAATCGGATTGGGAATTCTGATATAGGCTTTAAATCCTTGGAGGAGCTAGTCTTGATTAGAAAGACTTTGGCTGCACAGGCACTAAAGCTAAGGGGCTTGGAGATAAATCTGCATCGCGTGCTCAGCAAGGTGGTGTTACTCGCCGATGCAGTTGTGCAAGTACCTGGAAGATACTCCTCCAAAGAAGATCCCCTTGCCGTTCTATCTGAACGTCTAAATTTGTTGCTGGAGCGACTGAACCAGGAAGAAAGAATATCTACGAATTTGCTGGAACTCAAAGAGTGGTCAACTAAAGTGTGCCAAGAACCTTCCCCAAGCCAGACCTTACCAAAGGAACTTACTGAAGAAAAGGACGAGCCGAAAGTGG
Seq A exon
GCAAGTTATAGTGTATCATTTTCAAGTTTCATCGACTCACCCGGTGACATTTTCCAG
Seq C2 exon
ACTTTTACCAGCCCGCCAAATCCGATTGCCATGAGCTTGACGAAGGTGTCCGGGTGGATGGCGTCTATAGGTTTCTGGTTCCGGAGCGCAATGAAGTCCAGCGTGATTTGTACGAGCGTTATTGCGCCTTCGCCACCGACGGCCCCGCCTGGACAGTGATCCAGAGTAGAGGCGGCTCCTTCGATCCGCACGAAAATTTCAATCGCAGCTGGGACGAGTATCGCGCGGGTTTTGGTAACTTATCCCGAGACTTCTGGTTTGGCAACGAGTTCGCGCACAAGATTCTCTACCGCGACGATCATGAGCTGAGAATTGAGCTGCAGGAGGCAGGGGAACCGCTGGATTGGGCGGAGTATCCACTCTTCTGGCTAGACAGCGAGAGTTATAACTATCAGCTTTCGGTGGCTGGTGAATTCCGTGGTTCACTACCGGACGCTCTGGAGCAGCACAATCGGATGGATTTCAGCACTTACGATCGGCGAAGGAACCACGCGAAATCGGCAGATTCCACCTGTGGCGAGGATTACGGTGGTGGCTGGTGGTTTGATCGCTGCACACAGTGCAATCTGAATGGAGAACATGGTGTCCACCAGAGAGCAAGTCCAGCCATTATCTGGATGAACTGGCGGACCGGGACCGATAAACCGAAGAGCTCGCGGATGATGATTCGACCCGTAAATCCCACTCCGGGCGATAACTCTGATGGGGATTAGGCGGCGGAGAACTGGGAAATTTAAATAGCAATTCCAATCAAATGTTGCACGTATTTCTGCAATTGAACGTTACCGATAGTTGGCACTGCAAATAAACGTTACCGATAGGAATCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0038365:FBtr0307203:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.104 A=NA C2=0.114
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0014713=Fibrinogen_C=WD(100=92.9)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0298032
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:
AAAAGGACGAGCCGAAAGTGG
R:
GCTCGTACAAATCACGCTGGA
Band lengths:
138-195
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)