General information for g1688.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 CYP12A2.
Parent gene
- The parent gene g1688 is located on chr_3: 12558361..12560254 (+ 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_3 | g1688 | g1688.t1 | TSS | g1688.t1 | 12558295 | 12558295 |
| chr_3 | g1688 | g1688.t1 | isoform | g1688.t1 | 12558361 | 12560254 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon1 | 12558361 | 12558633 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS1 | 12558361 | 12558633 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon2 | 12558688 | 12558793 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS2 | 12558688 | 12558793 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon3 | 12558884 | 12559007 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS3 | 12558884 | 12559007 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon4 | 12559056 | 12559331 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS4 | 12559056 | 12559331 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon5 | 12559391 | 12559547 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS5 | 12559391 | 12559547 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon6 | 12559606 | 12560021 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS6 | 12559606 | 12560021 |
| chr_3 | g1688 | g1688.t1 | exon | g1688.t1.exon7 | 12560092 | 12560254 |
| chr_3 | g1688 | g1688.t1 | cds | g1688.t1.CDS7 | 12560092 | 12560254 |
| chr_3 | g1688 | g1688.t1 | TTS | g1688.t1 | 12560365 | 12560365 |
Sequences
>g1688.t1 Gene=g1688 Length=1515
ATGTTCATACGACAATCATTATCAACTACTCGTCGATTATTTTCGACAAATTTTGCAAAT
GAACTTCAAGAAGCAAAACCATTTTCTCAAATTCCTAAAATATCAGCTTTAAAATTAGTT
ATGGGTAATTTACCTGGTGGGAAATATTACAAGAAGTCAATAAAAGATATTCAAGATATG
TTTTATAAAGAATATGGTTGCATTGTAAAAATGCCGGGACTTTTTGGTCAACCTGAAATG
ATTTTTACCTTCAATGCAGACGATTTTGAAAAAGCATTCAGAGCAGAAGGAATTTGGCCA
GTGAGATTTGGAATTGAAACTTTAAAACATTATAGAGAAACAATGCGTCCAGAAATTTAT
ACAGAATTTGGAAGTTTAGGAACAAGTGATGGACAGAAATGGCAAACAACTAGAACAATT
GTCAATCCAATCATGATGCAACCTAAAACTGTCAAATTTTATACTCAACAAATTGATGAA
ATTGCTAAAGAACTTGTTGAAATAATGAGAAATATAAAAAATGATAAAAATGAAATGCCA
GGTAATTTCAGTGACTACCTCAATAGATGGTCGCTTGAATCAATTGCAACGATTGCAGTA
GAAAAACGATTAAATGTTCTTAGCGGTAAAACTGACGATGAAAATAGTAAAAAATTGATC
AAAGTCATTAGACAATTTTTCGAGCAAGGACCAGAATTTGAAGGAAAGCCAAGTATTTGG
AAGTATTATGAAACCAAAGATTTTAAGAATCTTATAGAAGTTTATGACACTATGACGAGT
ATTGTTTTCAATTATGTGAATGAAGCCATCAAAAGATTTGAAACAGAAGAAGTCAAAGAA
GGTCAGGAAGAAAGCATTTTGAGGAAGCTTTTAAAAGTTAATAAAAATGTGGCATTTATC
ACTGCTAGTGATTTATTAATTGCTGGTGTTGATACTACCGCTTCCGGTGTCACATTCATA
CTTTATTTATTAGCAAAAAATCCAGAAAAACAAGAAAAACTACGATCTGAAATTTTAAAA
ATTTTGCCTGAGAAAAATTCACAAATCGATTCAGAGAAAATGAAAAATTTACCATATTTA
AGAGCTGTGATCAAAGAAAGTTTTCGAATGTTGCCTGTTGCAGGAGGAAATGCAAGAAAA
GTTGCTAAAGATGTTGTGCTTGCTGGCTATCATGTACCAAAAGATAGTCTAATAGTTATG
AGTGCTTATAATGAACTATCAAATCCAAAATTCTATCCTGAACCTAAAAAATTCATTCCT
GAAAGATGGTTAAGAGAGAGCAAAGAAAGTGATCAATGGAAATCAAAGGAAAATAATCCA
TTCTCATTCTTGCCCTTCGGATTTGGTGCTCGATCATGTGTTGGAAAGCGAATAGCAGAA
TTAGAAACGGAAGTTGTTGTATCGAATATTATAAGAAATTTTAAACTAGAATGGGACTAT
CCTGATATAAAAATTAAAGGATTATTTGCAAATATTCCTGATTCAGAAATGAGATTTAAA
ATTACAGAAACGTAA
>g1688.t1 Gene=g1688 Length=504
MFIRQSLSTTRRLFSTNFANELQEAKPFSQIPKISALKLVMGNLPGGKYYKKSIKDIQDM
FYKEYGCIVKMPGLFGQPEMIFTFNADDFEKAFRAEGIWPVRFGIETLKHYRETMRPEIY
TEFGSLGTSDGQKWQTTRTIVNPIMMQPKTVKFYTQQIDEIAKELVEIMRNIKNDKNEMP
GNFSDYLNRWSLESIATIAVEKRLNVLSGKTDDENSKKLIKVIRQFFEQGPEFEGKPSIW
KYYETKDFKNLIEVYDTMTSIVFNYVNEAIKRFETEEVKEGQEESILRKLLKVNKNVAFI
TASDLLIAGVDTTASGVTFILYLLAKNPEKQEKLRSEILKILPEKNSQIDSEKMKNLPYL
RAVIKESFRMLPVAGGNARKVAKDVVLAGYHVPKDSLIVMSAYNELSNPKFYPEPKKFIP
ERWLRESKESDQWKSKENNPFSFLPFGFGARSCVGKRIAELETEVVVSNIIRNFKLEWDY
PDIKIKGLFANIPDSEMRFKITET
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g1688.t1 | Coils | Coil | Coil | 151 | 178 | - |
| 14 | g1688.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 22 | 504 | 1.1E-117 |
| 2 | g1688.t1 | PANTHER | PTHR24291:SF155 | CYTOCHROME P450 301B1 | 27 | 483 | 2.9E-118 |
| 3 | g1688.t1 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 27 | 483 | 2.9E-118 |
| 7 | g1688.t1 | PRINTS | PR00385 | P450 superfamily signature | 308 | 325 | 4.3E-13 |
| 10 | g1688.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 357 | 373 | 2.5E-13 |
| 5 | g1688.t1 | PRINTS | PR00385 | P450 superfamily signature | 362 | 373 | 4.3E-13 |
| 12 | g1688.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 390 | 404 | 2.5E-13 |
| 11 | g1688.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 406 | 424 | 2.5E-13 |
| 8 | g1688.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 437 | 453 | 2.5E-13 |
| 6 | g1688.t1 | PRINTS | PR00385 | P450 superfamily signature | 444 | 453 | 4.3E-13 |
| 4 | g1688.t1 | PRINTS | PR00385 | P450 superfamily signature | 453 | 464 | 4.3E-13 |
| 9 | g1688.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 453 | 471 | 2.5E-13 |
| 1 | g1688.t1 | Pfam | PF00067 | Cytochrome P450 | 38 | 478 | 1.9E-79 |
| 17 | g1688.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 304 | - |
| 18 | g1688.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 305 | 325 | - |
| 16 | g1688.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 326 | 504 | - |
| 19 | g1688.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 446 | 455 | - |
| 13 | g1688.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 40 | 501 | 2.23E-83 |
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:0004497 | monooxygenase activity | MF |
| GO:0055114 | NA | NA |
KEGG
Orthology
- This transcript has been annotated with K15004 (cytochrome P450 family 12 [EC:1.14.-.-])
Pathway
This gene does not belong to any 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.
