DmeINT0025901 @ dm6
Intron Retention
Gene
FBgn0004903 | Rb97D
Description
The gene Ribonuclear protein at 97D is referred to in FlyBase by the symbol DmelRb97D (CG6354, FBgn0004903). It is a protein_coding_gene from Dmel. It has 10 annotated transcripts and 10 polypeptides (3 unique). Gene sequence location is 3R:26872129..26875742. Its molecular function is described by: RNA binding; mRNA binding. It is involved in the biological process described with: regulation of RNA metabolic process; germ cell development. 14 alleles are reported. The phenotype of these alleles manifest in: axoneme. The phenotypic classes of alleles include: male sterile; lethal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of moderate expression. Peak expression observed within 00-12 hour embryonic stages, during late larval stages, at stages throughout the pupal period, in adult male stages.
Coordinates
chr3R:26873860-26874790:-
Coord C1 exon
chr3R:26874071-26874790
Coord A exon
chr3R:26873999-26874070
Coord C2 exon
chr3R:26873860-26873998
Length
72 bp
Sequences
Splice sites
5' ss Seq
ACCGTAGGT
5' ss Score
6.05
3' ss Seq
AGACACTCCTCAACCACCAGCAT
3' ss Score
1.29
Exon sequences
Seq C1 exon
TTAAAAAGCAACATGCGATTAAGTACGTTCACGTGGACGTCAAGAAGTCCATTTATAACCTGGACAAGAAGGAGAAACAGCAGCCAGGTGGGCTGGCCAACGCCATCAAGCCGTCGCTCAATCAGCAGCAGCAACAGCAGGGTGGCGGACAGCAGCCACCTAATGGCAATATGCAGGCACCTAGCTTTCGACCACCAGTGCCGCCACAACAGGCCATGGGCCCCTACCAACAACAGCCACCACCGGCGCCTATGTCTGCTCCACCACCAAACTTCAACTACTGGGGACCACCTCCGCCGGCTATGCCGCCCTACTACCAGCAGCCACCGCCGCAGCAGATGAACGGCTGGGGTCCATATCCGCCGCCGCAACAAAATGGCTGGAATGCACCACCACCGCCACCACCGGGTGCCCAGCAGTGGCACGCCAACCAGTGGGGTTGTCCTCCACCAGTGCAACAGGTGCCGCCGGTTGGAGCAGTGCCACCACCCATGGGTCACAATGGACCACCGCCGACGGCTCCAGGTAACTGGAACATGCCGCCCCCAGTGCCGGGTGCAGCTCCTCCATCCCACCAGCAGCAGTCTTCGCAACAGCCAACACCACAACCAAATTTCGGCACTGGCTATCAGCAAAACTACGGAGGCGGACCATCCAAGCACAACAATATGAATGCAAACCGCATGAATCCTTACTCGGCAGGTCCGCCCAACAGCTACC
Seq A exon
GTAGGTATAATCCATTATTAAAGACATGTAATTTTGAACAGCTACTAATTGTAGACACTCCTCAACCACCAG
Seq C2 exon
CATATACGGGCTACAACGCTGGACCACTGCCGCCTAATGGAAGCGTTCCGCCGCCAACTGGGGCCAAGGCTGTTGGCGTATCCAATGGCTCCGTGGCCACTGGAGGCAGTGCCAACAGCAAATATCGCCGCTAGATTGG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0004903:FBtr0085092:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.921 A=NA C2=0.955
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(12.1=3.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0084462
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0099739, FBpp0099743
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:
CGCATGAATCCTTACTCGGCA
R:
AGCGGCGATATTTGCTGTTGG
Band lengths:
172-244
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)