Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Fatty acid hydroxylase domain-containing protein 2.

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_1 g12948 g12948.t2 TTS g12948.t2 27099013 27099013
chr_1 g12948 g12948.t2 isoform g12948.t2 27099044 27099883
chr_1 g12948 g12948.t2 exon g12948.t2.exon1 27099044 27099255
chr_1 g12948 g12948.t2 cds g12948.t2.CDS1 27099044 27099255
chr_1 g12948 g12948.t2 exon g12948.t2.exon2 27099313 27099883
chr_1 g12948 g12948.t2 cds g12948.t2.CDS2 27099313 27099850
chr_1 g12948 g12948.t2 TSS g12948.t2 27100182 27100182

Sequences

>g12948.t2 Gene=g12948 Length=783
GATGACGAATATTATTTCAAAGTCATTCTCACAATGGCGTACACAACAATTCTCTATTGG
GGTGTCGGAATGTTATTCATTATTATGGACATTACAAATCCAAAGTTTATCCAAAAGTAC
AAAACACAACCTGAAGCCCATCTTCCACTTGACATGAAGAAATTTTTACCTGCATGTCGT
GTTGTGCTTTTCAATCAATTTGTATTAAATGTTTTAGTTTCACATGTTTTGACTATAATT
GAAAAAAACTTGGAACGTCCTGGACTTCGAACAACACCAACTTTCTATCAGTTGATGGTA
GATTTATTTTTATATCAATTCATTTATGAATTTGCATTCTTCTATACACATCGTTTGCTA
CACACGAAATATCTTTACAAAAAAATTCACAAAATTCATCATCAATGGCAAGCGCCAGTT
TCGATAATGGCAACTTATGCACATCCAATTGAACACATTTTTAGTAATCTTTTTCCTGTA
TTTCTTGGAATAGGTTTATTAAAATCGCCAATGTCAACAGGATGGGTTATAATGTCTTTG
ACAACTATTGGAACACTTGGAGATCATTCAGGCTATCATCTTCCATACTTTCATAGTCCA
CAATTTCATGATTGGCATCACTTGAAATTTAATGAATGTTATGGTGCTATGGGACTTTTA
GATAAATTTCATGGATGTTGTGAAAATTTTGAAAAAACTGTACAATATTTAAGGCATCGA
ACTTTATTTACATTTAAGTCAGCTAGTGAACTGTATCCCGATGAACCAAAGAAGAAAGAA
TAA

>g12948.t2 Gene=g12948 Length=249
MAYTTILYWGVGMLFIIMDITNPKFIQKYKTQPEAHLPLDMKKFLPACRVVLFNQFVLNV
LVSHVLTIIEKNLERPGLRTTPTFYQLMVDLFLYQFIYEFAFFYTHRLLHTKYLYKKIHK
IHHQWQAPVSIMATYAHPIEHIFSNLFPVFLGIGLLKSPMSTGWVIMSLTTIGTLGDHSG
YHLPYFHSPQFHDWHHLKFNECYGAMGLLDKFHGCCENFEKTVQYLRHRTLFTFKSASEL
YPDEPKKKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12948.t2 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 2 243 1.1E-71
3 g12948.t2 PANTHER PTHR11863 STEROL DESATURASE 2 243 1.1E-71
1 g12948.t2 Pfam PF04116 Fatty acid hydroxylase superfamily 92 214 1.7E-20
10 g12948.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
11 g12948.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 26 -
8 g12948.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 27 46 -
12 g12948.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 69 -
9 g12948.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 70 83 -
13 g12948.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 104 -
7 g12948.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 249 -
4 g12948.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
6 g12948.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 47 69 -
5 g12948.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -

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:0005506 iron ion binding MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF
GO:0008610 lipid biosynthetic process BP

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