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.t30 TTS g12949.t30 27101637 27101637
chr_1 g12949 g12949.t30 isoform g12949.t30 27101708 27103122
chr_1 g12949 g12949.t30 exon g12949.t30.exon1 27101708 27102084
chr_1 g12949 g12949.t30 cds g12949.t30.CDS1 27101708 27102084
chr_1 g12949 g12949.t30 exon g12949.t30.exon2 27102140 27102158
chr_1 g12949 g12949.t30 cds g12949.t30.CDS2 27102140 27102158
chr_1 g12949 g12949.t30 exon g12949.t30.exon3 27102223 27102575
chr_1 g12949 g12949.t30 cds g12949.t30.CDS3 27102223 27102575
chr_1 g12949 g12949.t30 exon g12949.t30.exon4 27102783 27102853
chr_1 g12949 g12949.t30 cds g12949.t30.CDS4 27102783 27102853
chr_1 g12949 g12949.t30 exon g12949.t30.exon5 27103037 27103122
chr_1 g12949 g12949.t30 cds g12949.t30.CDS5 27103037 27103122
chr_1 g12949 g12949.t30 TSS g12949.t30 27103151 27103151

Sequences

>g12949.t30 Gene=g12949 Length=906
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGTGAATATTATTTACTTTGGATTT
GGATTTCTTTATGTAATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAA
ACTCAACCTGAACAACATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTT
GTTATTTTCAATCAATTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGC
GATTGGATGCTGTCAACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATTGCTGAA
ATTTTTGGCTTTGGTTTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTGCTTCAT
CACAAGAGTATTTATCAATACATTCACAAAGTTCATCATAAATGGCAAGCGCCTGTGGCT
TTAATGGCAGCATATTGTCACCCTATAGAACATATCGTCAGTAATCTTCTTCCATTTATT
ATCAGTAATCTTCTCTTTCGTCATACATTAGCCACAACATGGGTCATTTACGCTGTAGCG
ATTATTTCGACTCTTGGTGACCACTCAGGATATCATTTGCCATTTCTTCATAGTCCACAA
TTTCATGATTACCATCACTTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTATTGAC
AAATTTCATGGCACAAACAAGAAATTTGAAGAATCAATTCAAGGATTAAGACATAGAACT
TTGTGGTCTTTAAAATCATCAAATGAATTATTTCCAGATGATAAAGTTACTGAGAAAGAA
AATTAA

>g12949.t30 Gene=g12949 Length=301
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFVNIIYFGF
GFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQFILSGIAIYWTYRSG
DWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSHRLLHHKSIYQYIHKVHHKWQAPVA
LMAAYCHPIEHIVSNLLPFIISNLLFRHTLATTWVIYAVAIISTLGDHSGYHLPFLHSPQ
FHDYHHLKFFENFGSNGFIDKFHGTNKKFEESIQGLRHRTLWSLKSSNELFPDDKVTEKE
N

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12949.t30 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 35 293 1.0E-73
3 g12949.t30 PANTHER PTHR11863 STEROL DESATURASE 35 293 1.0E-73
1 g12949.t30 Pfam PF04116 Fatty acid hydroxylase superfamily 145 265 2.0E-18
9 g12949.t30 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
17 g12949.t30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
12 g12949.t30 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 42 -
16 g12949.t30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 66 -
10 g12949.t30 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 67 93 -
15 g12949.t30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 94 117 -
13 g12949.t30 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 118 136 -
14 g12949.t30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 137 155 -
11 g12949.t30 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 156 301 -
6 g12949.t30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 29 -
8 g12949.t30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 66 -
4 g12949.t30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 95 117 -
5 g12949.t30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 132 154 -
7 g12949.t30 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 204 226 -

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