DmeINT0003390 @ dm6
Intron Retention
Gene
FBgn0037677 | CG12951
Description
This gene is referred to in FlyBase by the symbol DmelCG12951 (FBgn0037677). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 3R:9329223..9330331. Its molecular function is described by: serine-type endopeptidase activity. It is involved in the biological process described with: proteolysis. 5 alleles are reported. The phenotypes of these alleles manifest in: embryonic/larval fat body; mitochondrion. The phenotypic classes of alleles include: size defective; viable. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of very high expression to a trough of no expression detected. Peak expression observed during late larval stages, during early pupal stages.
Coordinates
chr3R:9329223-9330003:-
Coord C1 exon
chr3R:9329641-9330003
Coord A exon
chr3R:9329579-9329640
Coord C2 exon
chr3R:9329223-9329578
Length
62 bp
Sequences
Splice sites
5' ss Seq
GATGTGGGT
5' ss Score
2.02
3' ss Seq
CATAGTGTGATCTTTTCTAGACT
3' ss Score
6.11
Exon sequences
Seq C1 exon
GTATCCCTAAGGAGCTACGATGGCTCGCATTCCTGCGGTGGTTCTATTATTTCAAAACATTTTGTGATGACCGCTGCTCATTGCACCAATGGTCGACCTGCGGATACCCTATCAATTCAGTTTGGAGTGACCAATATTAGTGCCATGGGTCCGAATGTGGTGGGCATAAAGAAGATAATCCAGCACGAAGACTTTGATCCCACTCGCCAAAATGCAAATGACATCTCGCTGCTGATGGTGGAGGAACCTTTTGAGTTCGATGGCGTCTCTGTGGCCCCGGTGGAACTGCCAGCTCTGGCTTTTGCTGTGCCTCAATCGGATGCTGGAGTCGAAGGAGTGCTCATCGGTTGGGGTCTCAATGAT
Seq A exon
GTGGGTTTCGATTGGAAAATATGATTTTAAATAGGATTATTTCATAGTGTGATCTTTTCTAG
Seq C2 exon
ACTTATGGAAGTGTGCAGGACACCCTACAGGAGGTTTCCCTGAAGATTTACTCGGATGAAGAGTGCACCAGCCGGCACAATGGCCAAACGGATCCCAAATATCACATATGCGGAGGAGTAGACGAAGGAGGAAAGGGACAGTGCAGTGGAGATTCGGGCGGACCCCTCATCTACAATGGCCAGCAAGTGGGCATCGTGTCGTGGAGCATTAAGCCCTGCACCGTGGCTCCCTATCCGGGTGTCTACTGTAAGGTTAGCCAGTACGTTGACTGGATCAAAAGCAACCAAATCATATCGGCTTAGTCACAAAGTATATTGTTCAATAAATTGAAAATTAAAGCACTTAATAAATAATC
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0037677:FBtr0082058:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.008 A=NA C2=0.090
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(52.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(39.9=90.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0081536
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:
GAAGGAGTGCTCATCGGTTGG
R:
TTTGGGATCCGTTTGGCCATT
Band lengths:
132-194
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)