General information for g12089.t78
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha.
Parent gene
- The parent gene g12089 is located on chr_1: 20883607..20884841 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g12089 | g12089.t78 | TTS | g12089.t78 | 20883568 | 20883568 |
| chr_1 | g12089 | g12089.t78 | isoform | g12089.t78 | 20883607 | 20884841 |
| chr_1 | g12089 | g12089.t78 | exon | g12089.t78.exon1 | 20883607 | 20883902 |
| chr_1 | g12089 | g12089.t78 | cds | g12089.t78.CDS1 | 20883607 | 20883902 |
| chr_1 | g12089 | g12089.t78 | exon | g12089.t78.exon2 | 20883962 | 20884442 |
| chr_1 | g12089 | g12089.t78 | cds | g12089.t78.CDS2 | 20883962 | 20884022 |
| chr_1 | g12089 | g12089.t78 | exon | g12089.t78.exon3 | 20884512 | 20884612 |
| chr_1 | g12089 | g12089.t78 | exon | g12089.t78.exon4 | 20884672 | 20884841 |
| chr_1 | g12089 | g12089.t78 | TSS | g12089.t78 | 20884883 | 20884883 |
Sequences
>g12089.t78 Gene=g12089 Length=1048
ATGTTCCTGATCATTCTAACTTTATTAATAATTTCTACAATTTTATATAAGAACAATCAT
GTGTTTAAATATAATGTTAAATATCTTTTTTACATACTCGCATCATCAATTTTAGGGACA
CTTTCAATTCCTTATTTGATGCTACGACCAAGAAATCCGATAAATTTTAGAGGAGTTTGT
AAAATGTTTAGATTGATGTCACCTGTTTTGGGTTTGAGTTACGAATTAAGAGGAATAAAT
AATTTAGAAAAAGACTATGCATGTGTAATCGCTTCTAACCATCAAAGCAGTTTAGATTTT
CTCTGTGAGTATTGTGTAATTTATGATATTTTAAAACTATTAACTGCTCTTATTAATACA
TTTTTTACTCTAACTTTTTCCAATGTTTTTTTTCTTATCTAAATCAGGCATGTATGGTGC
GTTTTTATTACCTTTATCTTAACACACGATTAGTCATTAAAAGCATTTTTATTGATTTAG
AAATTTGGTATGCAATGCGAAGACATCCAATATTTCGAGTTACAGCAGTTGCAAGAATGT
TATTGCTATTTGCTGGACCATATGGAATTGGTGCATGGTAGAGAAACTTCCATTTTAGTA
AATGTCTTATTCCAATTATTTTTAAATTTCCTACAGGTTGTCTGGATTAATTTTCATCAA
TAAAGATTCACCAGATCGTGGGATCAAAAAAATGAATGAAAGCATGGAATATTTAAAGAA
AAATAAAATTCATTTGTGGATGTATGTGGAAGGCTATCGAAATCATTCGGGAAAGATTGA
TGAATTTAAGAAAGGAGCTTTTAGATTGGCAATTCAATCTCAAGTTCCAATTATACCTCT
TGTTATCTCGTCATACAATTATTTTCTTGACCCAAAAAAGATGATTTTCAATTCTGGGAA
AATTATAATTGAAGTCCTTCCCGAAATACCAACTAAAGGATTAAAATTGAGTGATTTGGA
TACATTAATGGAGAAAACTAGAAATGTGATGGTGAAAAAATTTGATGAATTAAATAATGA
ATTAAGATTGAATAATAATTTAAAATAA
>g12089.t78 Gene=g12089 Length=118
MNESMEYLKKNKIHLWMYVEGYRNHSGKIDEFKKGAFRLAIQSQVPIIPLVISSYNYFLD
PKKMIFNSGKIIIEVLPEIPTKGLKLSDLDTLMEKTRNVMVKKFDELNNELRLNNNLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12089.t78 | CDD | cd07989 | LPLAT_AGPAT-like | 1 | 97 | 0 |
| 2 | g12089.t78 | PANTHER | PTHR10434:SF50 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 1 | 112 | 0 |
| 3 | g12089.t78 | PANTHER | PTHR10434 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 1 | 112 | 0 |
| 1 | g12089.t78 | Pfam | PF01553 | Acyltransferase | 5 | 53 | 0 |
| 4 | g12089.t78 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 1 | 111 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016746 | acyltransferase activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed