Gene loci information

Transcript annotation

  • This transcript has been annotated as Lysophospholipid acyltransferase 5.

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 g778 g778.t3 TSS g778.t3 5973094 5973094
chr_3 g778 g778.t3 isoform g778.t3 5973327 5974461
chr_3 g778 g778.t3 exon g778.t3.exon1 5973327 5973399
chr_3 g778 g778.t3 cds g778.t3.CDS1 5973327 5973399
chr_3 g778 g778.t3 exon g778.t3.exon2 5973538 5973780
chr_3 g778 g778.t3 cds g778.t3.CDS2 5973538 5973780
chr_3 g778 g778.t3 exon g778.t3.exon3 5973895 5974392
chr_3 g778 g778.t3 cds g778.t3.CDS3 5973895 5974392
chr_3 g778 g778.t3 exon g778.t3.exon4 5974454 5974461
chr_3 g778 g778.t3 cds g778.t3.CDS4 5974454 5974461
chr_3 g778 g778.t3 TTS g778.t3 5975286 5975286

Sequences

>g778.t3 Gene=g778 Length=822
ATGTTATCATACTTGTCAGAGACATTAGGTGCTAGCGAAGCAGCTCTCCGTCTTTTATTC
TCTGTACTTTTTGCTTATCCTATCGTAATTTTCTATCGTCTGTTTCTACATAATAATGCG
AGCGTTGCAAAAAAGGAAACTAATCACTTGGTTTTTACTATATGCGGTATACTGATATGC
ATATTCAATTATGGCTTTGAGGTCCAGCATTCAATTTTAAGTGTAACTTTTACATACATC
ATCATTAATCTTTTGTACAAGTCTAAATATCTTGTGCCGGTATCGTTTATTTTTCACATG
TCGTATCTATTAATAGGCTATTATAAGACATCAACAGAAAATTATGATATATGTTGGACA
ATGGCTCACTGTGTAATGGTACTTCATTTAATTGGTTTAACTTTTGATGTAAACGATAGT
GTAAAAAAACCAGAAGTGCTAGGCATCACCGATTCACGGCCCTATAAAATTCCGTCTCTA
CTCGAAGTGTTTGGTTTTGCATATTTTCCGCCAACTGTCATCATTGGACCACAATTTTCA
TTTAAACGTTATTATGAGTTTACTAATGGAAAATATGATGTAGGAAAAGATAATTTCAAG
CATGGATTCTTGAGATGTGCAACTGGTCTCTTGTACTTGGGAATCTTTCAACTACTCTCA
ATTGTGATTGTTCCTGATAGTCTCTTCTTATCTGATGAATTCGGAGATAAAAACTTTCTA
TATAAAGTGTTTTTGCTAAGTCTTTGGGGACGTGCGAGCTTATACAAATACATCTCTTGT
TGGATATTATCAGAAGGAGCTGCAATTTGTGCAGGTCTTACA

>g778.t3 Gene=g778 Length=274
MLSYLSETLGASEAALRLLFSVLFAYPIVIFYRLFLHNNASVAKKETNHLVFTICGILIC
IFNYGFEVQHSILSVTFTYIIINLLYKSKYLVPVSFIFHMSYLLIGYYKTSTENYDICWT
MAHCVMVLHLIGLTFDVNDSVKKPEVLGITDSRPYKIPSLLEVFGFAYFPPTVIIGPQFS
FKRYYEFTNGKYDVGKDNFKHGFLRCATGLLYLGIFQLLSIVIVPDSLFLSDEFGDKNFL
YKVFLLSLWGRASLYKYISCWILSEGAAICAGLT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g778.t3 PANTHER PTHR13906:SF14 LYSOPHOSPHOLIPID ACYLTRANSFERASE 5 2 274 1.0E-81
3 g778.t3 PANTHER PTHR13906 PORCUPINE 2 274 1.0E-81
1 g778.t3 Pfam PF03062 MBOAT, membrane-bound O-acyltransferase family 105 274 4.3E-14
14 g778.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 13 -
23 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 14 35 -
11 g778.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 46 -
19 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 66 -
17 g778.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 67 85 -
21 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 105 -
13 g778.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 106 116 -
22 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 117 137 -
16 g778.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 138 156 -
18 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 157 181 -
10 g778.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 182 201 -
24 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -
15 g778.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 225 238 -
20 g778.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 239 258 -
12 g778.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 259 274 -
6 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
4 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -
8 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 91 108 -
5 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 137 -
7 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 159 181 -
9 g778.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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