Gene loci information

Transcript annotation

  • This transcript has been annotated as Glycerol-3-phosphate acyltransferase 3.

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_3 g755 g755.t4 TTS g755.t4 5741591 5741591
chr_3 g755 g755.t4 isoform g755.t4 5742224 5745920
chr_3 g755 g755.t4 exon g755.t4.exon1 5742224 5742979
chr_3 g755 g755.t4 cds g755.t4.CDS1 5742541 5742979
chr_3 g755 g755.t4 exon g755.t4.exon2 5743039 5743154
chr_3 g755 g755.t4 cds g755.t4.CDS2 5743039 5743154
chr_3 g755 g755.t4 exon g755.t4.exon3 5743445 5743681
chr_3 g755 g755.t4 cds g755.t4.CDS3 5743445 5743681
chr_3 g755 g755.t4 exon g755.t4.exon4 5744261 5744488
chr_3 g755 g755.t4 cds g755.t4.CDS4 5744261 5744452
chr_3 g755 g755.t4 exon g755.t4.exon5 5744590 5744917
chr_3 g755 g755.t4 exon g755.t4.exon6 5745783 5745920
chr_3 g755 g755.t4 TSS g755.t4 5746034 5746034

Sequences

>g755.t4 Gene=g755 Length=1803
ATGGCGCTGTTAGAATTAGCCAGTTCACTGCTTCTGGCTCCTTTTAGTGTTTTAATTGTA
GTTATTTTATTAGCATCATTCGGAAAATCATTTGGAATTAGAAGACTTTATGTGCGGATG
CTAATAAGACTATTTGAGTATGGTCGTGCAAATATTGAGTCAGCAATAAGAAAAGACAGT
GTTGATAGAGGAAATGAAATTGAACATGAGATTGGAGAACAAGAAGAAAAGACTATCAAG
TTGAATTTAAACAGCAAAGACAAAATATTGCCAAAAACAAATGGACTGGTTAACAAGTCA
GGTCAAAATGGCCACATTAGTAATGGCACTTCTGTTATTACAAAAGAATCGCTCATTCTT
GTGCCCGATAAAGCAATTCAAACAACAACAGTGACAACGACAACTACAACAAGTATAAAT
CATAAAGAGCAATCACAAGTGATATCAGAAAACAACAATGAGGTGTAAGCTGGATGATTG
TTTTGAATATATAAAATCAGGCATGGAAGCAATTATTGAAGATGAAGTAACTTCAAGATT
TGAAGCTGAAGAGCTTAAGAATTGGAATTTGTTGACTCGTACTAATAGAGGATATGAATT
CATATCATGGAAACTAACAGTCATATGGTTCATAGGATTTCTCATAAGATATTTATTTCT
TTTGCCTCTAAGGATAGTTATATGTTTTATTGGGGTATTATGGCTAACAATTTGCACGGC
AGTTGTGGGCTGGACATTACCAGAAGGTGACTTAAAACGACAAATTGTGAGCATCACACT
CATTCATTGTTCGGAATTTCTCTCAAACGCAATCTCATCAGTAGTTAATTATCATAATCC
TGAAAATCGACCCGTTAACGGAATTTGTGTAGCAAATCACACTTCACCAATCGACGCATT
AATGTTAATGTGTGATAATTGTTATTCACTGATTGGTCAACGACATGGTGGATTTTTAGG
AATTTTACAAAGAGCTTTAGCTCGTGCATCACCACATATTTGGTTTGAGAGAAATGAAGC
AAAGGATAGATCTGCTGTTGCAGCTAGGCTACGAGAACATGTCTCAGATCCAAAAAATCC
TCCTATTCTTATTTTTCCGGAAGGAACATGCATCAATAACACTTCTGTCATGCAATTCAA
AAAAGGAAGTTTTGAAGTTGGTGGTGTCATTTATCCAGTTGCCATAAAATATGATGCTCG
TTTTGGTGATGCTTTTTGGAACAGTTCAAGATACTCAATGATGCAGTATCTTTACATGAT
GATGACTTCATGGGCTATTGTTTGTGATGTTTGGTATCTGCCGCCTATGTATTGCGAGGA
GGGTGAGTCAGCTATAGATTTTGCGAATCGTGTTAAAAGAACGATTGCAAAACAAGGTGG
TCTTGTTGATCTCATGTGGGATGGTCAGTTAAAACGAATGAAAGCTAAAAAAGAATGGAA
AGAATTGCAGCAAGAAAAATTCGCAGAGCGACTTAAAGGAGATTAGTTTTTTTCTGTCAT
TTTTCTATATGCTTATATACATAAAATTTGGTTTTGTTAGCATGAACGAATGAATGAGCT
TCATAAATGAAGTTGATTTAAATATTCATTTTTAATTCATTCCAATTAAGATAAAAATAT
CAAAGATTTAACTACATTAATCAAATGTACATAGGTCACATAATGAAAGAAAACCAAAAA
ATTTAACGATGATTACCTCTTCTTTACTACTTTACTTACATACATACTGATTCGTACTCG
AAAAAAAAATTGTTTACAGCTAGAAACATTGTTTCATTTTCTAAAAAAATTATCACGATG
GGG

>g755.t4 Gene=g755 Length=327
MEAIIEDEVTSRFEAEELKNWNLLTRTNRGYEFISWKLTVIWFIGFLIRYLFLLPLRIVI
CFIGVLWLTICTAVVGWTLPEGDLKRQIVSITLIHCSEFLSNAISSVVNYHNPENRPVNG
ICVANHTSPIDALMLMCDNCYSLIGQRHGGFLGILQRALARASPHIWFERNEAKDRSAVA
ARLREHVSDPKNPPILIFPEGTCINNTSVMQFKKGSFEVGGVIYPVAIKYDARFGDAFWN
SSRYSMMQYLYMMMTSWAIVCDVWYLPPMYCEEGESAIDFANRVKRTIAKQGGLVDLMWD
GQLKRMKAKKEWKELQQEKFAERLKGD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g755.t4 CDD cd07991 LPLAT_LPCAT1-like 107 305 7.62514E-100
2 g755.t4 PANTHER PTHR23063 PHOSPHOLIPID ACYLTRANSFERASE 1 325 9.7E-158
3 g755.t4 PANTHER PTHR23063:SF2 ACYLTRANSFERASE-LIKE 1 325 9.7E-158
1 g755.t4 Pfam PF01553 Acyltransferase 108 228 1.6E-20
9 g755.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 32 -
12 g755.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 33 52 -
11 g755.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 53 57 -
14 g755.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 79 -
8 g755.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 80 248 -
13 g755.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 249 266 -
10 g755.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 267 327 -
7 g755.t4 SMART SM00563 plsc_2 120 231 1.2E-26
6 g755.t4 SUPERFAMILY SSF69593 Glycerol-3-phosphate (1)-acyltransferase 40 270 9.68E-7
4 g755.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 53 -
5 g755.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -

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

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.

Raw TPM values