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 g12949 g12949.t18 TTS g12949.t18 27101637 27101637
chr_1 g12949 g12949.t18 isoform g12949.t18 27101708 27103122
chr_1 g12949 g12949.t18 exon g12949.t18.exon1 27101708 27102100
chr_1 g12949 g12949.t18 cds g12949.t18.CDS1 27101708 27102100
chr_1 g12949 g12949.t18 exon g12949.t18.exon2 27102223 27102620
chr_1 g12949 g12949.t18 cds g12949.t18.CDS2 27102223 27102620
chr_1 g12949 g12949.t18 exon g12949.t18.exon3 27102783 27102853
chr_1 g12949 g12949.t18 cds g12949.t18.CDS3 27102783 27102853
chr_1 g12949 g12949.t18 exon g12949.t18.exon4 27103037 27103122
chr_1 g12949 g12949.t18 cds g12949.t18.CDS4 27103037 27103122
chr_1 g12949 g12949.t18 TSS g12949.t18 27103151 27103151

Sequences

>g12949.t18 Gene=g12949 Length=948
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTGAAGATGACTTCAATTTTAAA
TTTTTATATACGATGATTTACCTGAATATTATTTACTTTGGATTTGGATTTCTTTATGTA
ATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAAACTCAACCTGAACAA
CATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTTGTTATTTTCAATCAA
TTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGCGATTGGATGCTGTCA
ACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATTGCTGAAATTTTTGGCTTTGGT
TTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTGCTTCATCACAAGAGTATTTAT
CAATACATTCACAAATTATTATATTTTTCAGCGCCTGTGGCTTTAATGGCAGCATATTGT
CACCCTATAGAACATATCGTCAGTAATCTTCTTCCATTTATTATCAGTAATCTTCTCTTT
CGTCATACATTAGCCACAACATGGGTCATTTACGCTGTAGCGATTATTTCGACTCTTGGT
GACCACTCAGGATATCATTTGCCATTTCTTCATAGTCCACAATTTCATGATTACCATCAC
TTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTATTGACAAATTTCATGGCACAAAC
AAGAAATTTGAAGAATCAATTCAAGGATTAAGACATAGAACTTTGTGGTCTTTAAAATCA
TCAAATGAATTATTTCCAGATGATAAAGTTACTGAGAAAGAAAATTAA

>g12949.t18 Gene=g12949 Length=315
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGEDDFNFK
FLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQ
FILSGIAIYWTYRSGDWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSHRLLHHKSIY
QYIHKLLYFSAPVALMAAYCHPIEHIVSNLLPFIISNLLFRHTLATTWVIYAVAIISTLG
DHSGYHLPFLHSPQFHDYHHLKFFENFGSNGFIDKFHGTNKKFEESIQGLRHRTLWSLKS
SNELFPDDKVTEKEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12949.t18 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 32 307 3.3E-73
3 g12949.t18 PANTHER PTHR11863 STEROL DESATURASE 32 307 3.3E-73
1 g12949.t18 Pfam PF04116 Fatty acid hydroxylase superfamily 161 279 4.8E-13
9 g12949.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
21 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
15 g12949.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 60 -
16 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 82 -
11 g12949.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 108 -
17 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 132 -
14 g12949.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 133 151 -
18 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 170 -
10 g12949.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 181 -
20 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 199 -
13 g12949.t18 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 200 218 -
19 g12949.t18 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 219 239 -
12 g12949.t18 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 240 315 -
8 g12949.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
7 g12949.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
5 g12949.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 152 174 -
4 g12949.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 189 211 -
6 g12949.t18 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -

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. There were no conditions that were differentially expressed