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.t23 TTS g12949.t23 27101637 27101637
chr_1 g12949 g12949.t23 isoform g12949.t23 27101708 27103122
chr_1 g12949 g12949.t23 exon g12949.t23.exon1 27101708 27101982
chr_1 g12949 g12949.t23 cds g12949.t23.CDS1 27101956 27101982
chr_1 g12949 g12949.t23 exon g12949.t23.exon2 27102038 27102084
chr_1 g12949 g12949.t23 cds g12949.t23.CDS2 27102038 27102084
chr_1 g12949 g12949.t23 exon g12949.t23.exon3 27102140 27102158
chr_1 g12949 g12949.t23 cds g12949.t23.CDS3 27102140 27102158
chr_1 g12949 g12949.t23 exon g12949.t23.exon4 27102223 27102620
chr_1 g12949 g12949.t23 cds g12949.t23.CDS4 27102223 27102620
chr_1 g12949 g12949.t23 exon g12949.t23.exon5 27102783 27102853
chr_1 g12949 g12949.t23 cds g12949.t23.CDS5 27102783 27102853
chr_1 g12949 g12949.t23 exon g12949.t23.exon6 27103037 27103122
chr_1 g12949 g12949.t23 cds g12949.t23.CDS6 27103037 27103122
chr_1 g12949 g12949.t23 TSS g12949.t23 27103151 27103151

Sequences

>g12949.t23 Gene=g12949 Length=896
ATGACAGCAAGAATAAAAAAATCATTTTCTGATCTTGATGTGAATCCTTTACTTTATTGG
TTAACTTTGACTTATTTAATTACACGAACAATCGAAAAGTTCACAGGAACATCAGAATTT
TGGAGCAGTTTTTGGAATGGAATTATCGATTTTTTTGGTGAAGATGACTTCAATTTTAAA
TTTTTATATACGATGATTTACCTGAATATTATTTACTTTGGATTTGGATTTCTTTATGTA
ATAATGGACATCACAAATAAACCAAAGTTTATGCAAAAATACAAAACTCAACCTGAACAA
CATCAACCACTTGACATGAATAAATTTTTACCAGCCTTGATGGTTGTTATTTTCAATCAA
TTTATACTAAGTGGAATTGCAATTTATTGGACCTACAGATCAGGCGATTGGATGCTGTCA
ACCAATATTAGAGAGACTCCGACCTTCACAAGGTTAATTGCTGAAATTTTTGGCTTTGGT
TTAACCTATGAATTTGTTTTTTATTATTCACATCGGTTGCTTCATCACAAGAGTATTTAT
CAATACATTCACAAAGTTCATCATAAATGGCAAGCGCCTGTGGCTTTAATGGCAGCATAT
TGTCACCCTATAGAACATATCCCACAACATGGGTCATTTACGCTGTAGCGATTATTTCGA
CTCTTGGTGACCACTCAGGATATCATTTGCCATTTCTTCATAGTCCACAATTTCATGATT
ACCATCACTTGAAATTTTTTGAAAATTTTGGATCAAATGGATTTATTGACAAATTTCATG
GCACAAACAAGAAATTTGAAGAATCAATTCAAGGATTAAGACATAGAACTTTGTGGTCTT
TAAAATCATCAAATGAATTATTTCCAGATGATAAAGTTACTGAGAAAGAAAATTAA

>g12949.t23 Gene=g12949 Length=215
MTARIKKSFSDLDVNPLLYWLTLTYLITRTIEKFTGTSEFWSSFWNGIIDFFGEDDFNFK
FLYTMIYLNIIYFGFGFLYVIMDITNKPKFMQKYKTQPEQHQPLDMNKFLPALMVVIFNQ
FILSGIAIYWTYRSGDWMLSTNIRETPTFTRLIAEIFGFGLTYEFVFYYSHRLLHHKSIY
QYIHKVHHKWQAPVALMAAYCHPIEHIPQHGSFTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12949.t23 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 32 207 9.3E-42
3 g12949.t23 PANTHER PTHR11863 STEROL DESATURASE 32 207 9.3E-42
1 g12949.t23 Pfam PF04116 Fatty acid hydroxylase superfamily 160 210 1.3E-8
8 g12949.t23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
16 g12949.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
12 g12949.t23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 32 60 -
13 g12949.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 82 -
10 g12949.t23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 83 108 -
14 g12949.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 132 -
11 g12949.t23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 133 151 -
15 g12949.t23 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 170 -
9 g12949.t23 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 215 -
7 g12949.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 31 -
6 g12949.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 59 81 -
5 g12949.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 110 132 -
4 g12949.t23 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 147 169 -

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