General information for g12092.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Putative 1-acyl-sn-glycerol-3-phosphate acyltransferase acl-2.
Parent gene
- The parent gene g12092 is located on chr_1: 20889107..20889895 (- 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 | g12092 | g12092.t1 | TTS | g12092.t1 | 20888155 | 20888155 |
| chr_1 | g12092 | g12092.t1 | isoform | g12092.t1 | 20889107 | 20889895 |
| chr_1 | g12092 | g12092.t1 | exon | g12092.t1.exon1 | 20889107 | 20889456 |
| chr_1 | g12092 | g12092.t1 | cds | g12092.t1.CDS1 | 20889107 | 20889456 |
| chr_1 | g12092 | g12092.t1 | exon | g12092.t1.exon2 | 20889513 | 20889641 |
| chr_1 | g12092 | g12092.t1 | cds | g12092.t1.CDS2 | 20889513 | 20889641 |
| chr_1 | g12092 | g12092.t1 | exon | g12092.t1.exon3 | 20889841 | 20889895 |
| chr_1 | g12092 | g12092.t1 | cds | g12092.t1.CDS3 | 20889841 | 20889895 |
| chr_1 | g12092 | g12092.t1 | TSS | g12092.t1 | NA | NA |
Sequences
>g12092.t1 Gene=g12092 Length=534
ATGAATAAGACTACAGTTGTTGCAAAAAGAGAATTATTGTACATTCCACCGTTTGGCTTA
TGCGCCTATTTGTGTGGATTAGTGTTTATAGATAGATATGCTACTGATAAAGCAAAGAAC
ACAATGAATCAAGCGATGGAAAGACTGAAGCGAAACAATATCAAATTATGGATTTTTCCC
GAAGGAACTCGAAGAAACACAGGAGCAATTCATGAATTTAAAAAAGGAGCTTTCAATGTT
GCCGTGCAAGCTCAAGTCCCTATCATACCAGTCGTTATCAGCTCATATACTACGTTTCTC
GACAAAAAACTGAAAATATTTGAATCAAGTGAAATAATAATTGAAGCATTACCAGAAATT
TCTACAAAAGGCTTATCACATAACGATATTAATCAACTAATGCAAAAAAGTAGGAAACTT
ATGATTGAAAAATACAATGAAAACACACAAGAAATACTAATGAAAAATTCTCATAAAATA
ATGAAGGAGAAATCTTATAATATTCAAGAAACGTTATCGTCAACAACCCACTAG
>g12092.t1 Gene=g12092 Length=177
MNKTTVVAKRELLYIPPFGLCAYLCGLVFIDRYATDKAKNTMNQAMERLKRNNIKLWIFP
EGTRRNTGAIHEFKKGAFNVAVQAQVPIIPVVISSYTTFLDKKLKIFESSEIIIEALPEI
STKGLSHNDINQLMQKSRKLMIEKYNENTQEILMKNSHKIMKEKSYNIQETLSSTTH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g12092.t1 | CDD | cd07989 | LPLAT_AGPAT-like | 3 | 138 | 1.15264E-38 |
| 2 | g12092.t1 | PANTHER | PTHR10434:SF50 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 1 | 163 | 1.5E-64 |
| 3 | g12092.t1 | PANTHER | PTHR10434 | 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE | 1 | 163 | 1.5E-64 |
| 1 | g12092.t1 | Pfam | PF01553 | Acyltransferase | 4 | 94 | 9.8E-23 |
| 8 | g12092.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 11 | - |
| 9 | g12092.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 30 | - |
| 7 | g12092.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 31 | 177 | - |
| 6 | g12092.t1 | SMART | SM00563 | plsc_2 | 3 | 96 | 7.7E-23 |
| 5 | g12092.t1 | SUPERFAMILY | SSF69593 | Glycerol-3-phosphate (1)-acyltransferase | 3 | 153 | 3.01E-33 |
| 4 | g12092.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 34 | - |
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 transcript has been annotated with K13509 (lysophosphatidate acyltransferase)
Pathway
- This transcript belongs to the following pathways
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.
