General information for g12530.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable cytochrome P450 4d14.
Parent gene
- The parent gene g12530 is located on chr_1: 24270415..24271106 (- 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 | g12530 | g12530.t12 | TTS | g12530.t12 | 24268524 | 24268524 |
| chr_1 | g12530 | g12530.t12 | isoform | g12530.t12 | 24269168 | 24271106 |
| chr_1 | g12530 | g12530.t12 | exon | g12530.t12.exon1 | 24269168 | 24269523 |
| chr_1 | g12530 | g12530.t12 | exon | g12530.t12.exon2 | 24270426 | 24270492 |
| chr_1 | g12530 | g12530.t12 | cds | g12530.t12.CDS1 | 24270474 | 24270492 |
| chr_1 | g12530 | g12530.t12 | exon | g12530.t12.exon3 | 24270556 | 24271106 |
| chr_1 | g12530 | g12530.t12 | cds | g12530.t12.CDS2 | 24270556 | 24271106 |
| chr_1 | g12530 | g12530.t12 | TSS | g12530.t12 | 24271137 | 24271137 |
Sequences
>g12530.t12 Gene=g12530 Length=974
ATGTTTCTCTTTACAATTTTGTCAATTTTAATTATTGCTTTAATATCATGGTATAAAAAG
CATTTTAGGCGGCGTGATTATTTATATTCAAAAATTCCTCATCCATATCATATACCGCTT
CTACATCATAGCCTTGAATTCATCGGCAAAACGCCTAAAGAGCTATTTGATTGGATGGAA
GACATGAGCAATGAACTTGGCAACGTATATTTCTTTTCTACGGGTATTTTTGGTAGTGGT
TTTGCAGTAATTTCTGATGTAAAAATTGTAGAAGCATTGCTGTCAAGTCAAGTACAATTG
GATAAGACAATCGATTATAATTATTTAATAGATTGGATTGGAACAGGCTTACTTATTTCA
AATTCAAAGAAATGGTTTACTAGAAGAAAACTTTTGACACCAGGATTTCATTTTAAAATT
TTAGAGAGATTTGTAGAAATTCAAAATAATCAAGCAAATGTTTTCGTGAATATACTTCAA
GAATATGATGGGAAAGAAGTTGATATTTTTCCACTTGCTAGTTTATATGCACTTGATACC
GTATGTGGCAAAAGCGGCAATGGGAATTAATATTCATGCGCAAACAAAACAATCGGATTA
TCTAAAAGCAGTACAAGAAATCACAAGGATCATCACAATAAAATCATTTGATACAACAAA
GCAAATTGAATTTCTGTATCGCTTTACAGAAATGTATCGCAGAGAAAAGAAATTAATTGA
AGAATTGCATGCGTTCACTGACAAAATTATTCAATCGCGTAGAGAAGAATTACTGATGCA
CAATGAAGAAACGTCAGAGCAAAATGATGAGATCGGAACAAAAAAGAAGAAAGCTCTTTT
GGATATTTTGTTGAGTTCAAGAGTTGAAGGAGAGCCATTAAAAAATTCCGATATTCGAGA
AGAAGTTGATACATTCATGTTTGCCGGTCATGACACCTCTAAAAGTGGTATTTGTTTTGT
ATTTTATTGCATTG
>g12530.t12 Gene=g12530 Length=189
MFLFTILSILIIALISWYKKHFRRRDYLYSKIPHPYHIPLLHHSLEFIGKTPKELFDWME
DMSNELGNVYFFSTGIFGSGFAVISDVKIVEALLSSQVQLDKTIDYNYLIDWIGTGLLIS
NSKKWFTRRKLLTPGFHFKILERFVEIQNNQANVFVNILQEYDGKEVDIFPLASLYALDT
VCGKSGNGN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12530.t12 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 17 | 185 | 9.5E-22 |
| 2 | g12530.t12 | PANTHER | PTHR24291:SF143 | CYTOCHROME P450 4D1-RELATED | 8 | 183 | 1.0E-29 |
| 3 | g12530.t12 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 8 | 183 | 1.0E-29 |
| 1 | g12530.t12 | Pfam | PF00067 | Cytochrome P450 | 33 | 182 | 4.6E-14 |
| 7 | g12530.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 8 | g12530.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 9 | g12530.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 12 | - |
| 10 | g12530.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 16 | - |
| 6 | g12530.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 189 | - |
| 4 | g12530.t12 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 26 | 182 | 2.23E-24 |
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:0020037 | heme binding | MF |
| GO:0016705 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen | MF |
| GO:0005506 | iron ion binding | MF |
| GO:0055114 | NA | NA |
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