General information for g12946.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Fatty acid hydroxylase domain-containing protein 2.
Parent gene
- The parent gene g12946 is located on chr_1: 27095794..27096918 (+ strand)
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 | g12946 | g12946.t1 | TSS | g12946.t1 | 27095320 | 27095320 |
| chr_1 | g12946 | g12946.t1 | isoform | g12946.t1 | 27095668 | 27096918 |
| chr_1 | g12946 | g12946.t1 | exon | g12946.t1.exon1 | 27095668 | 27095738 |
| chr_1 | g12946 | g12946.t1 | cds | g12946.t1.CDS1 | 27095668 | 27095738 |
| chr_1 | g12946 | g12946.t1 | exon | g12946.t1.exon2 | 27095794 | 27095864 |
| chr_1 | g12946 | g12946.t1 | cds | g12946.t1.CDS2 | 27095794 | 27095864 |
| chr_1 | g12946 | g12946.t1 | exon | g12946.t1.exon3 | 27095930 | 27096375 |
| chr_1 | g12946 | g12946.t1 | cds | g12946.t1.CDS3 | 27095930 | 27096375 |
| chr_1 | g12946 | g12946.t1 | exon | g12946.t1.exon4 | 27096431 | 27096621 |
| chr_1 | g12946 | g12946.t1 | cds | g12946.t1.CDS4 | 27096431 | 27096621 |
| chr_1 | g12946 | g12946.t1 | exon | g12946.t1.exon5 | 27096768 | 27096918 |
| chr_1 | g12946 | g12946.t1 | cds | g12946.t1.CDS5 | 27096768 | 27096918 |
| chr_1 | g12946 | g12946.t1 | TTS | g12946.t1 | 27097008 | 27097008 |
Sequences
>g12946.t1 Gene=g12946 Length=930
ATGAAGTCCGATAAGAAGTTAACTTTAAATCCGTTATTTTTCTTAGTTTTCATTGTATAT
GGCACAACGCGCTTCTACGAATATTTTGCAAACAAAAAACATCTTTGGACAACATTATGG
CATAAGATTGTCGATGTTTTTGGTGACGATCTATTCAATATGTACTTTTTAGGTACATGT
ATTTATTCAGTTTTTCTCACTTACTGGATTTTCGGTGGAATTTATATTATCTTTGACATC
ACACTTAAGCCAAATTTTTTGAGAAAATATAAAATACAAGAGCAAACAAATGAGCCATTG
GATAAAAACTTGCTTATGAAAGTAGCTAAAGTTGTTTTATTCAATCAACTTTTCATTAGT
GTGCCTTTAAGTTACATTGGATATTTATTGAAAAAATCTAAAGGACTTAATGAATCACTA
AAAGATGTTCCAAGTTTTGATCGAGTTATTGTCGACTTAGCAATATGCATAATTGTTGAT
GAAATTGGTTTTTATTATAGTCATCGTTTAGTTCATACAAAATTTCTTTACAAATGGATT
CACAAACAACATCACGAACTTACAGCACCAATTGCCATTTCAGCAACTTATGCACATCCA
CTAGAGCATCTTTGCAGCAATGCTCTTCCAGTTGCTCTTGGACCACTTTTAGCAAAAAGT
CACTTGAGTGTGGCTTGGATTTGGTACACACTTGCACAAATGACAACTTTAAATAATCAT
TCTGGTTATCATTTTCCGTTTCTTCACATTTCTGAATTTCACGATTTTCATCACTTGAAA
TTTGTTGAATGCTATGGAAAAATTGGATTATTGGACAGACTTCACAACACAGATGCTTTA
TTTAGAAAAACAGTCCAAGGGTCAAGACATCGTGTTCTTTTCTCTACGCAATCAGCACGC
GAAAGATATCCCGATAAGAAGGAAGATTAA
>g12946.t1 Gene=g12946 Length=309
MKSDKKLTLNPLFFLVFIVYGTTRFYEYFANKKHLWTTLWHKIVDVFGDDLFNMYFLGTC
IYSVFLTYWIFGGIYIIFDITLKPNFLRKYKIQEQTNEPLDKNLLMKVAKVVLFNQLFIS
VPLSYIGYLLKKSKGLNESLKDVPSFDRVIVDLAICIIVDEIGFYYSHRLVHTKFLYKWI
HKQHHELTAPIAISATYAHPLEHLCSNALPVALGPLLAKSHLSVAWIWYTLAQMTTLNNH
SGYHFPFLHISEFHDFHHLKFVECYGKIGLLDRLHNTDALFRKTVQGSRHRVLFSTQSAR
ERYPDKKED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12946.t1 | PANTHER | PTHR11863:SF26 | FATTY ACID HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2 | 27 | 305 | 2.2E-96 |
| 3 | g12946.t1 | PANTHER | PTHR11863 | STEROL DESATURASE | 27 | 305 | 2.2E-96 |
| 1 | g12946.t1 | Pfam | PF04116 | Fatty acid hydroxylase superfamily | 154 | 277 | 2.3E-22 |
| 8 | g12946.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 16 | g12946.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 26 | - |
| 11 | g12946.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 53 | - |
| 15 | g12946.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 78 | - |
| 10 | g12946.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 79 | 110 | - |
| 14 | g12946.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 111 | 130 | - |
| 12 | g12946.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 131 | 149 | - |
| 13 | g12946.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 168 | - |
| 9 | g12946.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 169 | 309 | - |
| 7 | g12946.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 26 | - |
| 6 | g12946.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 78 | - |
| 5 | g12946.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 111 | 130 | - |
| 4 | g12946.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
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 transcript has been annotated with K07750 (methylsterol monooxygenase)
Pathway
- This transcript belongs to the following pathways
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.
