Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha.

Parent gene

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 g12091 g12091.t3 TTS g12091.t3 20886792 20886792
chr_1 g12091 g12091.t3 isoform g12091.t3 20886891 20887906
chr_1 g12091 g12091.t3 exon g12091.t3.exon1 20886891 20887198
chr_1 g12091 g12091.t3 cds g12091.t3.CDS1 20886891 20887198
chr_1 g12091 g12091.t3 exon g12091.t3.exon2 20887270 20887464
chr_1 g12091 g12091.t3 cds g12091.t3.CDS2 20887270 20887441
chr_1 g12091 g12091.t3 exon g12091.t3.exon3 20887648 20887906
chr_1 g12091 g12091.t3 TSS g12091.t3 20888086 20888086

Sequences

>g12091.t3 Gene=g12091 Length=762
ATGGCAGCACTTTATATTCCTTATTTTGCAATCCGAGGGAAAACTGTTGAAAATATTTTG
TAAGAAACTAGGATTTTGATCTTTGCTGTCATAAGCAATATTTTTGTTTCTTAAATTTCA
GAATTTACGCTGAAACAATCAAACATTTAACTAGGGTATTAGGCATTACATGGACATTGA
GAGGTGCAGAAAGCTTAATGGAAAATAAATCATTTATTATTATAGCTAACCATCAAACTT
CAGTGGACATTATGGGTATATATATGGCACGTCATTCAAAGCATGACTGTGATTGCGAAA
AAAGAGTTGCTATATGCGGGGCCTTTCGGCATTGCCGCTTATCTATCGGGTTTAATTTTT
ATTGATCGTCATAGCTCGAAAGGAAAAGAAACAATGAATCAAGCAATGGAAGTGCTTAAG
AAAAACAACACAAAACTGTGGATATTCCCAGAAGGAACAAGAAGAAACACTGGTGAAATT
CACAATTTCAAAAAGGGAGCATTTCACACTGCAATTCAATATGAAATTCCAATTATTCCC
ATAGTTTTCAGCTCATATCGTCATTTTCTAGATGATAAAAATAAGAAGTTTGATGAGGGA
GAAATTATTCTAACTGTCTTACCCACAATCAAAACTAAAGGACTAAAATTGAGTGATATT
GATGAATTAATGGAGAAGACTAAGAAAGAAATGACTTTGGTGTACAAAAAAATTTCTGAT
GAAGCAGCTGAGAATTTAAAACAATCAAAAAACAAACTGTGA

>g12091.t3 Gene=g12091 Length=159
MTVIAKKELLYAGPFGIAAYLSGLIFIDRHSSKGKETMNQAMEVLKKNNTKLWIFPEGTR
RNTGEIHNFKKGAFHTAIQYEIPIIPIVFSSYRHFLDDKNKKFDEGEIILTVLPTIKTKG
LKLSDIDELMEKTKKEMTLVYKKISDEAAENLKQSKNKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g12091.t3 CDD cd07989 LPLAT_AGPAT-like 1 134 1.21423E-34
2 g12091.t3 PANTHER PTHR10434:SF50 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 2 157 8.8E-62
3 g12091.t3 PANTHER PTHR10434 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE 2 157 8.8E-62
1 g12091.t3 Pfam PF01553 Acyltransferase 2 90 4.4E-21
7 g12091.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 8 -
9 g12091.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 9 27 -
8 g12091.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 28 159 -
6 g12091.t3 SMART SM00563 plsc_2 1 92 6.7E-17
5 g12091.t3 SUPERFAMILY SSF69593 Glycerol-3-phosphate (1)-acyltransferase 2 148 3.79E-27
4 g12091.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 10 27 -

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.

Raw TPM values