General information for g12089.t76
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.t76 | TTS | g12089.t76 | 20883568 | 20883568 |
| chr_1 | g12089 | g12089.t76 | isoform | g12089.t76 | 20883607 | 20884841 |
| chr_1 | g12089 | g12089.t76 | exon | g12089.t76.exon1 | 20883607 | 20883902 |
| chr_1 | g12089 | g12089.t76 | cds | g12089.t76.CDS1 | 20883607 | 20883902 |
| chr_1 | g12089 | g12089.t76 | exon | g12089.t76.exon2 | 20883962 | 20884077 |
| chr_1 | g12089 | g12089.t76 | cds | g12089.t76.CDS2 | 20883962 | 20884077 |
| chr_1 | g12089 | g12089.t76 | exon | g12089.t76.exon3 | 20884137 | 20884233 |
| chr_1 | g12089 | g12089.t76 | cds | g12089.t76.CDS3 | 20884137 | 20884219 |
| chr_1 | g12089 | g12089.t76 | exon | g12089.t76.exon4 | 20884399 | 20884841 |
| chr_1 | g12089 | g12089.t76 | TSS | g12089.t76 | 20884883 | 20884883 |
Sequences
>g12089.t76 Gene=g12089 Length=952
ATGTTCCTGATCATTCTAACTTTATTAATAATTTCTACAATTTTATATAAGAACAATCAT
GTGTTTAAATATAATGTTAAATATCTTTTTTACATACTCGCATCATCAATTTTAGGGACA
CTTTCAATTCCTTATTTGATGCTACGACCAAGAAATCCGATAAATTTTAGGTGAAATAAT
TTAAATTTATTAAGCAAAAAAAAAATGAATAAAAATTGTGCATTTTTAGAGGAGTTTGTA
AAATGTTTAGATTGATGTCACCTGTTTTGGGTTTGAGTTACGAATTAAGAGGAATAAATA
ATTTAGAAAAAGACTATGCATGTGTAATCGGTATGCAAATATTTTTCACATGATTATGAC
GACGCATTTAAGTTTCAGTTTCTATTTGCATTATTTCAGCTTCTAACCATCAAAGCAGTT
TAGATTTTCTCTGTGAGTATTGTAAATTTGGTATGCAATGCGAAGACATCCAATATTTCG
AGTTACAGCAGTTGCAAGAATGTTATTGCTATTTGCTGGACCATATGGAATTGGTGCATG
GTTGTCTGGATTAATTTTCATCAATAAAGATTCACCAGATCGTGGGATCAAAAAAATGAA
TGAAAGCATGGAATATTTAAAGAAAAATAAAATTCATTTGTGGATGTATGTGGAAGGCTA
TCGAAATCATTCGGGAAAGATTGATGAATTTAAGAAAGGAGCTTTTAGATTGGCAATTCA
ATCTCAAGTTCCAATTATACCTCTTGTTATCTCGTCATACAATTATTTTCTTGACCCAAA
AAAGATGATTTTCAATTCTGGGAAAATTATAATTGAAGTCCTTCCCGAAATACCAACTAA
AGGATTAAAATTGAGTGATTTGGATACATTAATGGAGAAAACTAGAAATGTGATGGTGAA
AAAATTTGATGAATTAAATAATGAATTAAGATTGAATAATAATTTAAAATAA
>g12089.t76 Gene=g12089 Length=164
MRRHPIFRVTAVARMLLLFAGPYGIGAWLSGLIFINKDSPDRGIKKMNESMEYLKKNKIH
LWMYVEGYRNHSGKIDEFKKGAFRLAIQSQVPIIPLVISSYNYFLDPKKMIFNSGKIIIE
VLPEIPTKGLKLSDLDTLMEKTRNVMVKKFDELNNELRLNNNLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g12089.t76 | CDD | cd07989 | LPLAT_AGPAT-like | 18 | 143 | 1.2946E-25 |
| 2 | g12089.t76 | PANTHER | PTHR10434:SF50 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 8 | 158 | 3.5E-52 |
| 3 | g12089.t76 | PANTHER | PTHR10434 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 8 | 158 | 3.5E-52 |
| 1 | g12089.t76 | Pfam | PF01553 | Acyltransferase | 9 | 99 | 6.4E-15 |
| 8 | g12089.t76 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 10 | g12089.t76 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 35 | - |
| 9 | g12089.t76 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 36 | 164 | - |
| 7 | g12089.t76 | SMART | SM00563 | plsc_2 | 8 | 101 | 8.5E-6 |
| 6 | g12089.t76 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 22 | 157 | 2.62E-28 |
| 4 | g12089.t76 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 5 | g12089.t76 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 86 | 105 | - |
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