DmeINT0019943 @ dm6
Intron Retention
Gene
FBgn0034433 | EndoB
Description
The gene Endophilin B is referred to in FlyBase by the symbol DmelEndoB (CG9834, FBgn0034433). It is a protein_coding_gene from Dmel. It has 5 annotated transcripts and 5 polypeptides (4 unique). Gene sequence location is 2R:19307447..19310665. Its molecular function is described by: lysophosphatidic acid acyltransferase activity; phospholipid binding. It is involved in the biological process described with: clathrin-dependent endocytosis involved in vitellogenesis; membrane organization; vitellogenesis; plasma membrane tubulation. 12 alleles are reported. The phenotypes of these alleles manifest in: yolk granule; eye; mesothoracic tergum; oocyte. The phenotypic classes of alleles include: decreased fecundity; partially lethal - majority die; visible; viable; lethal - all die during larval stage; lethal. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderately high expression to a trough of low expression. Peak expression observed within 00-06 hour embryonic stages.
Coordinates
chr2R:19309663-19310313:-
Coord C1 exon
chr2R:19309816-19310313
Coord A exon
chr2R:19309699-19309815
Coord C2 exon
chr2R:19309663-19309698
Length
117 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
CTGCTGCCCGGAATTTTTAGAAA
3' ss Score
5.7
Exon sequences
Seq C1 exon
CTCACGGAGGAGAAACTGGGCACCACGGAGCGCACCGAGTACGACTTGCACTTCCAGAATCTCGCCGAGCGGGCTGATGTGACCAAGACATGGACGGAGAAGATAGTGCGCGACACAGAGTCGGTGCTGATACCCAATCCTCAGAACCGGGTCGAAGACTTCATCTTCGAGAAGATTGAAAAGTCGAAGCCAAAAAGGTTGAGCAACCTAGAGCACCTGGCTCTGGACATGATCGAGGCTGGGGGCGATTTCGGGCAGGATTTACCCTATGGTCAGGCTCTGATCAAGGTCGGCCAAGCGGAACAGAAACTGGGCCAGTGCGAGCACGACTTTATAGCCACCTCGGGCATTTGCTTTACACAGCCGTTGCGCAAGTTCCTAGACGGCGAAATGAAGACAATTGGCAAGGAGCGAGGCATCCTGGAGACCAAGCGCCTGGATCTGGACGCCTGCAAGAACAGGGTGAAGAAAGCGCGCAGCATGCTGGGTCAGCAATCG
Seq A exon
GTAAGTGGGTGGGATTTGATGGGGTTTCCTTATTGCAAGGGGGTATGATTGATTGGGTTTCGTAATGGCTTTTTCACTCACGGTCTTTTTCTGCCCTCTGCTGCCCGGAATTTTTAG
Seq C2 exon
AAAGATGGCATCTCGCCAGAGGCCGTCTTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0034433:FBtr0086558:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.625
Domain overlap (PFAM):
C1:
PF0311413=BAR=FE(67.6=100),PF086386=Med14=PU(13.0=8.4)
A:
NA
C2:
PF0311413=BAR=FE(4.3=100),PF086386=Med14=PU(2.1=16.7)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0085742
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0112010
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:
CTCTGATCAAGGTCGGCCAAG
R:
CTGTTCCAAGACGGCCTCTG
Band lengths:
257-374
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)