DmeINT0010621 @ dm6
Intron Retention
Gene
FBgn0030421 | CG3812
Description
The gene 1-Acylglycerol-3-phosphate O-acyltransferase 1 is referred to in FlyBase by the symbol DmelAgpat1 (CG3812, FBgn0030421). It is a protein_coding_gene from Dmel. It has 4 annotated transcripts and 4 polypeptides (1 unique). Gene sequence location is X:12765266..12772851. Its molecular function is described by: 1-acylglycerol-3-phosphate O-acyltransferase activity. It is involved in the biological process described with: phosphatidic acid biosynthetic process. 9 alleles are reported. No phenotypic data is available. The phenotypic classes of alleles include: fertile; 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 00-12 hour embryonic stages.
Coordinates
chrX:12769691-12770978:+
Coord C1 exon
chrX:12769691-12769824
Coord A exon
chrX:12769825-12769914
Coord C2 exon
chrX:12769915-12770978
Length
90 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TTTTTCTTTATGATACGCAGGCA
3' ss Score
6
Exon sequences
Seq C1 exon
ATGGGCGAGCACCTGGTGCCACCGCGTTTCGACGTTGATTGGCCTGCGATGGGAGCTGCGCGGCAAGGAGCATTTGGCCAAGGACCAGGCCTGCATCATTGTGGCCAATCACCAAAGCTCGCTGGATGTGCTGG
Seq A exon
GTAAGCCTATAGGTTTCTCTATGCCCATCAATCCATCAATCAAACAGTGATGCCAACTAAATGAGACTTTTTTTTCTTTATGATACGCAG
Seq C2 exon
GCATGTTCAACATCTGGCATGTGATGAACAAGTGCACAGTGGTGGCCAAACGAGAGCTCTTCTACGCCTGGCCTTTTGGCTTGGCGGCATGGTTGGCTGGCCTAATCTTCATCGATCGTGTGCGCGGCGAGAAGGCGCGCGAAACGCTAAACGATGTTAACCGGCGCATCAAGAAGCAACGTATCAAACTGTGGGTTTTCCCGGAGGGAACGCGCCGCAATACGGGCGCACTGCATCCGTTCAAAAAGGGCGCCTTTCACATGGCCATCGATCAGCAGATACCCATTCTGCCGGTGGTCTTCTCCTCCTACTGCACATTCCTCAATGATAAGAAAAAGATTTTGAATTCGGGTCGCATTGTGATTACCACGCTGCCGCCGGTTAGCACCGAAGGACTAACCAAGGACGACATCGATGTGCTAATGGAGCGTGTCCGCTCCCAGATGATTGAAACGTTCAAGGTGACGTCTGCGGAGGCGTTGCATCGTTATAAGCCCATTAAAAAGGTTGGAATTCCAGCCGCCTCATCAGCATCAACATCATCTACGACAACAACAACATTGGCATCACCGGGAACTGCTGTCACTCCCGTTGCGGATGCGGCAGTGGCTGCCGCAGCTGCCGTGGCCAGTAGCAGTTCGGCATACGGTCAACCGCCGGGCTACGAAGCCGGAGCCGCAAAGGCCAGCTTGCTCAAGACACTTTAGGCTATGCAGCAATTCAATTCAATCCAAACACACACACACACACAGCCAGCCACACACACTCATATCCAAAAAATACGAAACACCTCATGGCGTAGCTGAAGTGTCACGTTTTGGGGGCTTTTAGTTGGACACGTTAACTGGCAATCAGCTTTATTTGGGCCTATTTGGGAATTCTATAGTCCACAGTTGTGCAATTATCGTACACGTGCAGTATTTGTTTTGATATTATTGTTTAAAGTCCAAACTATGTTTTGTCATCATTTTATTGCATACTTTTCGTAATTTATTTCTCTCAAAAATGACTTTATGTAAGAATATTTGTCATTAGAGTATTCATTTTGAGGCGTGTGAAAAATT
VastDB Features
Vast-tools module Information
Secondary ID
FBgn0030421:FBtr0073688:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.051
Domain overlap (PFAM):
C1:
PF0155316=Acyltransferase=PU(22.1=63.0)
A:
NA
C2:
PF0155316=Acyltransferase=PD(77.1=42.8),PF046958=Pex14_N=WD(100=39.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
FBpp0073521
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
FBpp0073522, FBpp0305378
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:
GTTTCGACGTTGATTGGCCTG
R:
AGGCGTAGAAGAGCTCTCGTT
Band lengths:
178-268
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)