DmeINT0026526 @ dm6
Intron Retention
Gene
FBgn0014026 | RpL7A
Description
The gene Ribosomal protein L7A is referred to in FlyBase by the symbol DmelRpL7A (CG3314, FBgn0014026). It is a protein_coding_gene from Dmel. It has 6 annotated transcripts and 6 polypeptides (1 unique). Gene sequence location is X:6530897..6533348. Its molecular function is described by: RNA binding; structural constituent of ribosome. It is involved in the biological process described with: cytoplasmic translation; maturation of LSU-rRNA. 6 alleles are reported. The phenotypes of these alleles manifest in: eye disc; embryonic/larval optic stalk; glial cell. The phenotypic classes of alleles include: lethal - all die during larval stage; phenotype; increased mortality during development; some die during P-stage. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of extremely high expression to a trough of very high expression. Peak expression observed at stages throughout embryogenesis, at stages throughout the larval period, during early pupal stages, in adult female stages.
Coordinates
chrX:6533124-6533348:-
Coord C1 exon
chrX:6533230-6533348
Coord A exon
chrX:6533162-6533229
Coord C2 exon
chrX:6533124-6533161
Length
68 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
AATATTTTATTTACTTTCAGCGA
3' ss Score
7.82
Exon sequences
Seq C1 exon
TCACCTCGGTATATCGCTTCTTTTGGCGTTTCGGTGCAAATGTGGCACGGTCAGATCGAATCTACTCGATTTCCAACATTGGAACTGCCACTTCCTTTCTTTTTCGTTCCACGTTTCCG
Seq A exon
GTGAGTGCATGTGCCTAGCGAGCAGTCCTGAATTTTGTGCTAAAAACCAATATTTTATTTACTTTCAG
Seq C2 exon
CGAGTATTTCGATACGTTCGTGGTCGTGCTTATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0014026:FBtr0070915:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
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:
TCACCTCGGTATATCGCTTCT
R:
GATAAGCACGACCACGAACGT
Band lengths:
153-221
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)