Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t4 TSS g778.t4 5973094 5973094
chr_3 g778 g778.t4 isoform g778.t4 5973327 5974461
chr_3 g778 g778.t4 exon g778.t4.exon1 5973327 5974396
chr_3 g778 g778.t4 cds g778.t4.CDS1 5973939 5974396
chr_3 g778 g778.t4 exon g778.t4.exon2 5974454 5974461
chr_3 g778 g778.t4 cds g778.t4.CDS2 5974454 5974460
chr_3 g778 g778.t4 TTS g778.t4 5975286 5975286

Sequences

>g778.t4 Gene=g778 Length=1078
ATGTTATCATACTTGTCAGAGACATTAGGTGCTAGCGAAGCAGCTCTCCGTCTTTTATTC
TCTGTACTTTTTGGTAAGAACGAAACCTGTGAAAATTTCCATTATCGATTTTCTTTTCAC
GTTTGGATTTTATTGATTTTTTTCTTCTCACACACATTTTTCTTTTGTTCGCTCATTCGC
TCATACTCTCTATATTTTTTACTCTTCACAGCTTATCCTATCGTAATTTTCTATCGTCTG
TTTCTACATAATAATGCGAGCGTTGCAAAAAAGGAAACTAATCACTTGGTTTTTACTATA
TGCGGTATACTGATATGCATATTCAATTATGGCTTTGAGGTCCAGCATTCAATTTTAAGT
GTAACTTTTACATACATCATCATTAATCTTTTGTACAAGTCTAAATATCTTGTGCCGGTA
TCGTTTATTTTTCACATGTCGTATCTATTAATAGGTAAGTAAGTTCTAATAATTTCTTTT
TCGCTCTTTGCATGAATTTGTCACACAATTACATACAAGGAAAAAAACGAGAGCGGATTG
AATTTTTTCATTTTATATTTGTGTCTAGGCTATTATAAGACATCAACAGAAAATTATGAT
ATATGTTGGACAATGGCTCACTGTGTAATGGTACTTCATTTAATTGGTTTAACTTTTGAT
GTAAACGATAGTGTAAAAAAACCAGAAGTGCTAGGCATCACCGATTCACGGCCCTATAAA
ATTCCGTCTCTACTCGAAGTGTTTGGTTTTGCATATTTTCCGCCAACTGTCATCATTGGA
CCACAATTTTCATTTAAACGTTATTATGAGTTTACTAATGGAAAATATGATGTAGGAAAA
GATAATTTCAAGCATGGATTCTTGAGATGTGCAACTGGTCTCTTGTACTTGGGAATCTTT
CAACTACTCTCAATTGTGATTGTTCCTGATAGTCTCTTCTTATCTGATGAATTCGGAGAT
AAAAACTTTCTATATAAAGTGTTTTTGCTAAGTCTTTGGGGACGTGCGAGCTTATACAAA
TACATCTCTTGTTGGATATTATCAGAAGGAGCTGCAATTTGTGCAGGTTTGTCTTACA

>g778.t4 Gene=g778 Length=155
MAHCVMVLHLIGLTFDVNDSVKKPEVLGITDSRPYKIPSLLEVFGFAYFPPTVIIGPQFS
FKRYYEFTNGKYDVGKDNFKHGFLRCATGLLYLGIFQLLSIVIVPDSLFLSDEFGDKNFL
YKVFLLSLWGRASLYKYISCWILSEGAAICAGLSY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g778.t4 PANTHER PTHR13906:SF14 LYSOPHOSPHOLIPID ACYLTRANSFERASE 5 1 155 1.7E-42
3 g778.t4 PANTHER PTHR13906 PORCUPINE 1 155 1.7E-42
1 g778.t4 Pfam PF03062 MBOAT, membrane-bound O-acyltransferase family 34 154 9.0E-13
11 g778.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
12 g778.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
13 g778.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
17 g778.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
9 g778.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 42 -
15 g778.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 61 -
8 g778.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 62 81 -
16 g778.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -
10 g778.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 105 133 -
14 g778.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 134 153 -
7 g778.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 154 155 -
6 g778.t4 SignalP_EUK SignalP-noTM SignalP-noTM 1 16 -
5 g778.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 39 61 -
4 g778.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 82 104 -

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