Gene loci information

Transcript annotation

  • This transcript has been annotated as Lysophospholipid acyltransferase 7.

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 g353 g353.t5 TSS g353.t5 2824110 2824110
chr_3 g353 g353.t5 isoform g353.t5 2824437 2825915
chr_3 g353 g353.t5 exon g353.t5.exon1 2824437 2825915
chr_3 g353 g353.t5 cds g353.t5.CDS1 2824461 2825642
chr_3 g353 g353.t5 TTS g353.t5 NA NA

Sequences

>g353.t5 Gene=g353 Length=1479
TGTCATTTAATTGTATTCTGGTTTATGATGGGATATTTGCTTTTTCTTCGAAATGTCACT
TGGTTTGGTTTGTCAGCTATGGTAGGACATGCAAACATGATTCAAATGATAATGACATTG
AAGATTATTGGATTTGCATTTGAGAAAAATACTGTAGTTACAAAGGTCAGAGATGCTGAG
AAGAAGGGGGAAAAAATTGAGTTGAATGGTTATGAGAGAGCATTGAAAGAAAGTACAACT
TTTGAAATCTTCCATTATTGTTTCAATTATATTGGATTGGTAACTGGTCCATATTACACT
TACAAAACATTTTACGATTTCTTCCACTTGCCATTTAGTAAATATGTCGACTATTGGAAG
TCAACTTTAGAGAGACTCAAATATGTTCCCATTTATGTCGTTCTTTTTCTTACTGCATCA
TACATTTGGCCACTCGAATATGCTTCAACTAATGAATTTTATGAATCTCGTTCTTTTCTT
TATCGTCTGTTTTTTGTATGGCCAACTTTCTTCATCTTTCGAATGAGAATTTATAGTGGA
ATAATTTTGGCTGAATGTGTCTGCATTAGTGCAGGTTTTGGTGCATATCCCAAACAATTA
AATACCAAATGTGGTCATGGACCATCAGAAGAAATTACCAAAGAAATTATAGAAAGAGCT
GATAAATTGGAATACGAATTTAAAACAATTGAAAATGTTGATGTAAAAAGTGTTGAAACA
TGCTACACGTTTAGAGAAGCAATGAAGCACTGGAATAAGTGCATTCAGTATTGGCTTGCA
ATGTACATCTACAAGAGATTTCCGAACAAGAAATATCGAGTTATTGCGACAATGCTTGTC
TCATCATATTGGCATGGAGTTCATGCTGGATATTATTTTTGCATTCTCGGACCTATTTTT
TATCTTCCAATTGAAGATCTTTATTTAAAATTATTTAAATCTGAGTATCCACAAATTCAA
CAAATTTACAATGTGTGCTTATGGATTTTGAAATTCTTTGCATTCAGTTATTTGGGAACT
GCTTTCTTACTTAAAGATGTCAAGAAAATTTGGTTCTATTATTCATCTGTTTACCATTTT
GGTTATATTTTCTGGGCTATTCTCTTTATCATCTGTTTAGTATTGTGGACACAAAAGAAA
CGTGCCATAAAGAGAGCCGAAAAGAAAATAGAGGCGGCTATCGCTGAAGACAAAAAAGAA
AACTAATTCCGTCTTGCTTGATATTATTTTTATTACATTTGCATGATATTTTTAAAGACT
TGGTTGTAATGAATTCTCATTTTTCCGTACTTTTATTTATTTATAAAAAATGTTTGTAGT
TTGAACAAAAATTTAATCGAATATATAAAATGACACATGAATAAAAAAATATGAATGTCA
ATTTGCATCACCAACAAAAAGTTTTGTAAATAAATTAAAAATCACAAATTTTTTAAACAA
AAATTTCAGAATGTTAAAAAAATTGTTTTTTAGGAAAAT

>g353.t5 Gene=g353 Length=393
MMGYLLFLRNVTWFGLSAMVGHANMIQMIMTLKIIGFAFEKNTVVTKVRDAEKKGEKIEL
NGYERALKESTTFEIFHYCFNYIGLVTGPYYTYKTFYDFFHLPFSKYVDYWKSTLERLKY
VPIYVVLFLTASYIWPLEYASTNEFYESRSFLYRLFFVWPTFFIFRMRIYSGIILAECVC
ISAGFGAYPKQLNTKCGHGPSEEITKEIIERADKLEYEFKTIENVDVKSVETCYTFREAM
KHWNKCIQYWLAMYIYKRFPNKKYRVIATMLVSSYWHGVHAGYYFCILGPIFYLPIEDLY
LKLFKSEYPQIQQIYNVCLWILKFFAFSYLGTAFLLKDVKKIWFYYSSVYHFGYIFWAIL
FIICLVLWTQKKRAIKRAEKKIEAAIAEDKKEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g353.t5 Coils Coil Coil 375 393 -
2 g353.t5 PANTHER PTHR13906 PORCUPINE 2 380 4.9E-125
3 g353.t5 PANTHER PTHR13906:SF16 LYSOPHOSPHOLIPID ACYLTRANSFERASE 7 2 380 4.9E-125
1 g353.t5 Pfam PF03062 MBOAT, membrane-bound O-acyltransferase family 59 336 2.6E-32
16 g353.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
23 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 39 -
13 g353.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 40 74 -
25 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 93 -
18 g353.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 94 119 -
24 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 120 139 -
15 g353.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 140 150 -
22 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 151 169 -
19 g353.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 170 274 -
21 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 275 296 -
14 g353.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 297 316 -
26 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 317 336 -
17 g353.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 337 341 -
20 g353.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 342 368 -
12 g353.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 369 393 -
4 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
10 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 78 100 -
9 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 120 137 -
5 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 150 169 -
8 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 279 301 -
6 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 314 336 -
7 g353.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 346 368 -

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