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.t3 TSS g353.t3 2824110 2824110
chr_3 g353 g353.t3 isoform g353.t3 2824163 2825642
chr_3 g353 g353.t3 exon g353.t3.exon1 2824163 2824372
chr_3 g353 g353.t3 exon g353.t3.exon2 2824433 2825642
chr_3 g353 g353.t3 cds g353.t3.CDS1 2824464 2825642
chr_3 g353 g353.t3 TTS g353.t3 2825828 2825828

Sequences

>g353.t3 Gene=g353 Length=1420
ATGTCCACTGAATTGAGACACGACGATCTGATTTATGGCATTGTGTTACTTCTCGGTATC
GGTTTCGGGCATTTTTATAGAAAAATCCGTGATATTTCAAATAAGAAACTGATTGGAACA
ATCTATGGCTTGTCAATAATTCTTTTCACATCAAAACTTCAATCATTCCACATCTTCATC
ACATTTTTTATCAGTTGCATTATCATCAAAGAAATGTCATTTAATTGTATTCTGGTTTAT
GATGGGATATTTGCTTTTTCTTCGAAATGTCACTTGGTTTGGTTTGTCAGCTATGGTAGG
ACATGCAAACATGATTCAAATGATAATGACATTGAAGATTATTGGATTTGCATTTGAGAA
AAATACTGTAGTTACAAAGGTCAGAGATGCTGAGAAGAAGGGGGAAAAAATTGAGTTGAA
TGGTTATGAGAGAGCATTGAAAGAAAGTACAACTTTTGAAATCTTCCATTATTGTTTCAA
TTATATTGGATTGGTAACTGGTCCATATTACACTTACAAAACATTTTACGATTTCTTCCA
CTTGCCATTTAGTAAATATGTCGACTATTGGAAGTCAACTTTAGAGAGACTCAAATATGT
TCCCATTTATGTCGTTCTTTTTCTTACTGCATCATACATTTGGCCACTCGAATATGCTTC
AACTAATGAATTTTATGAATCTCGTTCTTTTCTTTATCGTCTGTTTTTTGTATGGCCAAC
TTTCTTCATCTTTCGAATGAGAATTTATAGTGGAATAATTTTGGCTGAATGTGTCTGCAT
TAGTGCAGGTTTTGGTGCATATCCCAAACAATTAAATACCAAATGTGGTCATGGACCATC
AGAAGAAATTACCAAAGAAATTATAGAAAGAGCTGATAAATTGGAATACGAATTTAAAAC
AATTGAAAATGTTGATGTAAAAAGTGTTGAAACATGCTACACGTTTAGAGAAGCAATGAA
GCACTGGAATAAGTGCATTCAGTATTGGCTTGCAATGTACATCTACAAGAGATTTCCGAA
CAAGAAATATCGAGTTATTGCGACAATGCTTGTCTCATCATATTGGCATGGAGTTCATGC
TGGATATTATTTTTGCATTCTCGGACCTATTTTTTATCTTCCAATTGAAGATCTTTATTT
AAAATTATTTAAATCTGAGTATCCACAAATTCAACAAATTTACAATGTGTGCTTATGGAT
TTTGAAATTCTTTGCATTCAGTTATTTGGGAACTGCTTTCTTACTTAAAGATGTCAAGAA
AATTTGGTTCTATTATTCATCTGTTTACCATTTTGGTTATATTTTCTGGGCTATTCTCTT
TATCATCTGTTTAGTATTGTGGACACAAAAGAAACGTGCCATAAAGAGAGCCGAAAAGAA
AATAGAGGCGGCTATCGCTGAAGACAAAAAAGAAAACTAA

>g353.t3 Gene=g353 Length=392
MGYLLFLRNVTWFGLSAMVGHANMIQMIMTLKIIGFAFEKNTVVTKVRDAEKKGEKIELN
GYERALKESTTFEIFHYCFNYIGLVTGPYYTYKTFYDFFHLPFSKYVDYWKSTLERLKYV
PIYVVLFLTASYIWPLEYASTNEFYESRSFLYRLFFVWPTFFIFRMRIYSGIILAECVCI
SAGFGAYPKQLNTKCGHGPSEEITKEIIERADKLEYEFKTIENVDVKSVETCYTFREAMK
HWNKCIQYWLAMYIYKRFPNKKYRVIATMLVSSYWHGVHAGYYFCILGPIFYLPIEDLYL
KLFKSEYPQIQQIYNVCLWILKFFAFSYLGTAFLLKDVKKIWFYYSSVYHFGYIFWAILF
IICLVLWTQKKRAIKRAEKKIEAAIAEDKKEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g353.t3 Coils Coil Coil 374 392 -
2 g353.t3 PANTHER PTHR13906 PORCUPINE 2 379 6.4E-125
3 g353.t3 PANTHER PTHR13906:SF16 LYSOPHOSPHOLIPID ACYLTRANSFERASE 7 2 379 6.4E-125
1 g353.t3 Pfam PF03062 MBOAT, membrane-bound O-acyltransferase family 58 335 2.6E-32
16 g353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
26 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 38 -
12 g353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 39 73 -
21 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 92 -
19 g353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 93 118 -
24 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 138 -
14 g353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 139 149 -
23 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 150 168 -
18 g353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 169 273 -
20 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 274 295 -
13 g353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 296 315 -
25 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 316 335 -
17 g353.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 336 340 -
22 g353.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 341 367 -
15 g353.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 368 392 -
8 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -
7 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
5 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 119 136 -
10 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 149 168 -
9 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 278 300 -
4 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 313 335 -
6 g353.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 345 367 -

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. There were no conditions that were differentially expressed