General information for g60.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 6a8.
Parent gene
- The parent gene g60 is located on chr_3: 438846..439826 (- 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 | g60 | g60.t1 | isoform | g60.t1 | 438846 | 439826 |
| chr_3 | g60 | g60.t1 | exon | g60.t1.exon1 | 438846 | 439826 |
| chr_3 | g60 | g60.t1 | cds | g60.t1.CDS1 | 438846 | 439826 |
| chr_3 | g60 | g60.t1 | TSS | g60.t1 | NA | NA |
| chr_3 | g60 | g60.t1 | TTS | g60.t1 | NA | NA |
Sequences
>g60.t1 Gene=g60 Length=981
ATGTTTTTGTTAAAAATTTTGTTCTACATAGCGCTTCCTATAGCGTCTTTAATTTACTTT
TATTTCCATAAAAAGTTTAGCTATTTTGAAAAACGTGGAATACCTCACCAAAAGCCTAAA
TTTCCTATGGGAAATCTGCAAGGATTGGGCTCAAAATTTACATTCTTTGACATTATTCAC
GATATTTATAAGAAATTCAAGGATAAAGATGTCATTGTTGGATTATATAGTGTCGTAACT
CCAATTTATCTCATCACTGACATTGAGCTTGCCAAAAATATTTTAATTCGAGATTTCAAT
TTTTTTATCAATCGTCGAGGTTATGTAAATGAAGAAGATGAGCCATTGACTGCACATCTT
TTTAATCTAATGGATGATAAATGGAAATTTTTGCGCAACAAGCTTTCGCCTGTTTTCACT
TCTGGTAAAATGAAATCAATGTACTACACAATTAGTGATAAAGGACAAAATTATCTTGCA
ATTGTTGATAAAGCGATGAGACAAAATGAATCGATAAACATTAAAGAGATTACTAATCGT
TTTACAGTAGATATCATTAGTTCAGTGGCATTTGGAATGAACGCAAACACAATGAATGAT
GAACATCCTGAACTTTTGAGATTTTTTAAAGAAATTTTCAATGCTGAAGGATTTAGTTTT
GCCAAAATGTTTTTCATGATGGCTTTTCCAAAAATTGCACAAAAACTGAAAATGAAAATT
TTCTCAAAAGAAATGTCAGACTTTTTCATGAATGTTGTTAGCAATAACATTGAAAATCGT
GAGAGAACTAATGACAATAGACATGATTTCCTAAACATGCTGATTCAGCTTAAAAATAAA
GGTTCAATTGATGGAGAATTCTCAACAGAACATAGAAAAATCACTTTAAATGAAGCGCTT
GCTCAAAGTTTTGTTTTCTATTTTGGTAATTTAAAAATGACCTTGAAAATTTTGATGATT
TGCTCTTGTAAAATTTCCTAA
>g60.t1 Gene=g60 Length=326
MFLLKILFYIALPIASLIYFYFHKKFSYFEKRGIPHQKPKFPMGNLQGLGSKFTFFDIIH
DIYKKFKDKDVIVGLYSVVTPIYLITDIELAKNILIRDFNFFINRRGYVNEEDEPLTAHL
FNLMDDKWKFLRNKLSPVFTSGKMKSMYYTISDKGQNYLAIVDKAMRQNESINIKEITNR
FTVDIISSVAFGMNANTMNDEHPELLRFFKEIFNAEGFSFAKMFFMMAFPKIAQKLKMKI
FSKEMSDFFMNVVSNNIENRERTNDNRHDFLNMLIQLKNKGSIDGEFSTEHRKITLNEAL
AQSFVFYFGNLKMTLKILMICSCKIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g60.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 17 | 322 | 5.4E-53 |
| 2 | g60.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 6 | 308 | 3.3E-87 |
| 3 | g60.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 6 | 308 | 3.3E-87 |
| 5 | g60.t1 | PRINTS | PR00464 | Group II E-class P450 signature | 125 | 145 | 1.5E-9 |
| 4 | g60.t1 | PRINTS | PR00464 | Group II E-class P450 signature | 180 | 198 | 1.5E-9 |
| 1 | g60.t1 | Pfam | PF00067 | Cytochrome P450 | 38 | 298 | 8.9E-28 |
| 11 | g60.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 12 | g60.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 22 | - |
| 10 | g60.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 23 | 326 | - |
| 8 | g60.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 26 | 309 | 2.49E-38 |
| 6 | g60.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 23 | - |
| 7 | g60.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 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: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 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