DmeINT0014069 @ dm6
Intron Retention
Gene
FBgn0034694 | CG6613
Description
The gene Pleckstrin homology and RUN domain containing M1 is referred to in FlyBase by the symbol DmelPlekhm1 (CG6613, FBgn0034694). It is a protein_coding_gene from Dmel. It has 2 annotated transcripts and 2 polypeptides (1 unique). Gene sequence location is 2R:22103177..22105963. Its molecular function is unknown. It is involved in the biological process described with: intracellular signal transduction. 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 moderately high expression to a trough of very low expression. Peak expression observed within 00-06 hour embryonic stages, during late larval stages.
Coordinates
chr2R:22103177-22103941:+
Coord C1 exon
chr2R:22103177-22103381
Coord A exon
chr2R:22103382-22103441
Coord C2 exon
chr2R:22103442-22103941
Length
60 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TATACATTCACGTATTGCAGAGG
3' ss Score
6.16
Exon sequences
Seq C1 exon
TGGGGATGATTTCTTCAATGTTAATTTCTTTAGACCCTCGGAAAACCACAACAAAAGGTGCGGATCGACATCCAAATGAGCTCCCTGTTCCGCAGCCTGAACCATTTTTCTTCGAAACGGGAGAATGTCGTGAAGGAGGCGCTCATAAATACACTGAACGAAAATGCGCGTGAGATAGAGTTCGAGGTGAAACAGAAGAGTTTGG
Seq A exon
GTGAGTTCTGGGTACTCCCCCGGAAATGGCCATCCATTTATATACATTCACGTATTGCAG
Seq C2 exon
AGGTCCTGGGAGTATGTGAGCAGACCAGTGCCCTGTGCACCACCCTGGAGGCCCTGTTCCTGCACGGGCTGAAGGACTCCTTCCTGTCCGCCACCTTCAATGTCATCGCTGGCGATGTGGAACGCAGGCCCGAGCCCAGCTTCTGGGCGCCCTGCATGGTCTTTATGCACAAGCAGGTGATCGAGCAGGTGCAGGGTCTCAGCCAGATCACCTCAGAGACGGGGCAGTGCCGCGCCTGGGTGCGCCAGTCGCTTAACGAGTCTGTGTTCTCCTCCTATCTGAACAACATGCGCAAGAACGGATCGGCCCTGTCGCAGTACTACAAGCGAAACGCCCTTATGCGGGACTCCGAGGGTCTGGAGACGGCCGCCAAGATTATGGAGAGCTTGGAGGCCTATGTGCAATTCGATCTGCCAGTGAACTCCAGCCTGTTGAACCACTGGCCCGACTACTCCCTGCAGCTATCTGATCTCTGGACACCTGCTCTCAAGTCCTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034694:FBtr0071758:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0275914=RUN=WD(100=79.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0071672
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:
TCCGCAGCCTGAACCATTTTT
R:
GCTCACATACTCCCAGGACCT
Band lengths:
138-198
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)