DmeINT0006478 @ dm6
Intron Retention
Gene
FBgn0033529 | CG17765
Description
This gene is referred to in FlyBase by the symbol DmelCG17765 (FBgn0033529). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:10480163..10481886. Its molecular function is described by: calcium ion binding. The biological processes in which it is involved are not known. 7 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 very high expression to a trough of moderately high expression. Peak expression observed within 06-12 hour embryonic stages.
Coordinates
chr2R:10481090-10481290:+
Coord C1 exon
chr2R:10481090-10481169
Coord A exon
chr2R:10481170-10481226
Coord C2 exon
chr2R:10481227-10481290
Length
57 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TCATTGTATCACTGTTGCAGCAA
3' ss Score
7.42
Exon sequences
Seq C1 exon
GCATGTTCGACAACGACGCCAGTGGTACCATCGATATCTATGAGTTCGAGAAGCTCTACAACTACATCAACCAATGGCTG
Seq A exon
GTAAGGTATTTCTTATATCGAAACTAAGTAGTCTGACTCATTGTATCACTGTTGCAG
Seq C2 exon
CAAGTCTTCAAGACCTACGATCAGGACTCCTCTGGACATATCGAGGAACAGGAGCTGACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0033529:FBtr0088274:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(27.5=70.4),PF134991=EF-hand_7=PU(3.2=7.4)
A:
NA
C2:
PF134991=EF-hand_7=FE(33.9=100)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0087367
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:
GACAACGACGCCAGTGGTAC
R:
GGTCAGCTCCTGTTCCTCGAT
Band lengths:
132-189
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)