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 g12947 g12947.t12 TTS g12947.t12 27097147 27097147
chr_1 g12947 g12947.t12 isoform g12947.t12 27097224 27098516
chr_1 g12947 g12947.t12 exon g12947.t12.exon1 27097224 27097474
chr_1 g12947 g12947.t12 cds g12947.t12.CDS1 27097224 27097474
chr_1 g12947 g12947.t12 exon g12947.t12.exon2 27097541 27097699
chr_1 g12947 g12947.t12 cds g12947.t12.CDS2 27097541 27097699
chr_1 g12947 g12947.t12 exon g12947.t12.exon3 27097767 27098233
chr_1 g12947 g12947.t12 cds g12947.t12.CDS3 27097767 27098100
chr_1 g12947 g12947.t12 exon g12947.t12.exon4 27098434 27098516
chr_1 g12947 g12947.t12 TSS g12947.t12 27098545 27098545

Sequences

>g12947.t12 Gene=g12947 Length=960
ATGGATCTTAAAAATAGTCTTACAAGTTTTGATATTTTTCATCCATTGACATATTATATT
CCAATTATATATTTTATAACAAGTTTGTGACATTGACAAGTTTTATCTTTATTTTTTTTT
ATATTTTATGCAGATGACGACTACACTTTTAAACTATATGGCACAATTATTTATACCAGT
TTAATTTATTGGATTGTTGGTTTGTTATATTTTTCAATGGACGTAACACAGAAACCAAAA
TCTTTTCGTAAATATAAGACACAACCTGATGCAAATGAACCTCTTGATTATAAGAAAATT
TTGTTGGCTTTACCTCTTGTACTTTTCAACCAACTTATACTTAATCCCATAGTAACATGT
ATTTTTGTGACAATTGGAAGGAAAACTTTATCAAGTGCTCATATTCGCTACACAACAAGT
TTTCAACAATTGATGATCGATATTATCGTGTATCAATTAATTTATGAAGCATGCTTTTAT
TATGCTCATCGATTATTTCACCATAAATATTTCTATGCAAAAATTCACAAAGTTCATCAT
AAATTTACAGCACCCGTCTCTCTAATGGCAACCTATGCTCATCCAATTGAACATATTTTT
GCAAATATGCTTCCAATTGTCATTCCGATTTCATTACTAAAATTACCAATTTCAACTAGT
TGGATAGTTATGACATTGACAACAATCGCAACACTTGGAGATCATTCAGGATATCACTTA
CCTTTTCTACACAGTCCTCAATTTCACGACTGGCATCACGCAAAATTTAGTGAATGTTAT
GGAGCAATGGGAATTTTAGATAAATTTCATGGGACGTCTAAAAATTTCGAGAAAGCCATC
AACTCCATAAGACATAGAACTATTTTTTCAATGAAATCAGTAGTGGAATTATATCCAGAC
GATTTAATAGAAAAATCAAATATTGAAGCAAAAAATAGTGAAAATAAGAAAATTCAATAA

>g12947.t12 Gene=g12947 Length=247
MDVTQKPKSFRKYKTQPDANEPLDYKKILLALPLVLFNQLILNPIVTCIFVTIGRKTLSS
AHIRYTTSFQQLMIDIIVYQLIYEACFYYAHRLFHHKYFYAKIHKVHHKFTAPVSLMATY
AHPIEHIFANMLPIVIPISLLKLPISTSWIVMTLTTIATLGDHSGYHLPFLHSPQFHDWH
HAKFSECYGAMGILDKFHGTSKNFEKAINSIRHRTIFSMKSVVELYPDDLIEKSNIEAKN
SENKKIQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12947.t12 PANTHER PTHR11863:SF26 FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 1 227 6.4E-64
3 g12947.t12 PANTHER PTHR11863 STEROL DESATURASE 1 227 6.4E-64
1 g12947.t12 Pfam PF04116 Fatty acid hydroxylase superfamily 77 200 6.2E-23
8 g12947.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 27 -
12 g12947.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 51 -
7 g12947.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 52 71 -
10 g12947.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 72 90 -
9 g12947.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 91 126 -
11 g12947.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 127 145 -
6 g12947.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 146 247 -
4 g12947.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
5 g12947.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 69 91 -

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