General information for g4588.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable cytochrome P450 6a20.
Parent gene
- The parent gene g4588 is located on chr_2: 3347736..3348783 (- 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_2 | g4588 | g4588.t3 | isoform | g4588.t3 | 3347736 | 3348783 |
| chr_2 | g4588 | g4588.t3 | exon | g4588.t3.exon1 | 3347736 | 3348783 |
| chr_2 | g4588 | g4588.t3 | cds | g4588.t3.CDS1 | 3347737 | 3348783 |
| chr_2 | g4588 | g4588.t3 | TSS | g4588.t3 | 3348808 | 3348808 |
| chr_2 | g4588 | g4588.t3 | TTS | g4588.t3 | NA | NA |
Sequences
>g4588.t3 Gene=g4588 Length=1048
ATGGAAATAATTTTATTCTTGATATTTTTGGTGATTTTATTTTTCTATCTTCTTGATCAT
CGATACACTTACTGGAAACGCAAAAATGTTCCCTATATTGAACCTGAATATTTTTATGGA
AACGCTCGTGGTTGTGGCACAACAATGTTTTCAGGTCTTTTCTACAGAGAAATGTATAAT
AAATTAAAGAAATTTAAGCCAATTGCAGGTTTTTATTTGTATTCTCAACCAGCAATTATG
GTGACAGATCTTGATTTGATAAAAACAATTTTTGTAAAAGATTTCAACAGTTTTCATGAA
CGTGGTGGTTATTATAATGAAAAAGATGATCCAACTAGCGCAAATATGGCAGTACTTGAA
GGCCATAAATGGAAAATATTGAGAAATAAAGTAACTCCGGTTTTCACAAGTGAAAAGATT
AAAAAAATGTTTTCAATAATTGGTAATGTTGCTGATAGAATGATTGACCGAATTGCATTT
GAAAGTAAAGAAGTTGGCTCAATAGATGTGAAAACACTTTTTACAAGATATACAACTGAT
GTTATTGGTGAAATTGCGTTTGGAATTTCTTGCAATAGTCTAAATGATTATTCTGCACCA
TTTTATAAATTTGGCACAGAAGCGTTTACTAATTTGAGTTTTTTAAAACGAACTTTTACT
ATGTATTATCCTAATTTAAGTCGTAAATTAGGCATTACTGTTAACAGACCAGAAATTGTT
GCATTTTATAAAGATGTCGTGGAGCAAACAATTAAATATCGAGAAGAAAATAACATTGAA
CGAAATGATGTTTTTTCATTGTTAATAAAATTAATGAAAAATTCTCAATTAACATTCAAT
GAAGTTTTAACTCAAAGCATAATGTTTTTCTTGGGTGGTTATGAAACAACTTCAAAAGTT
ATGATGTTCACAACATATTTGTTAAGCCAACATAAGGAAATCAGAGAAAAATTACGAAAA
AATATTGCAGAAGCATTAGCAATACATAATGGAGAATTTACTTATGAAGCTGTCAATGAA
ATGCATTATTTAGAGCAATGCATTAATG
>g4588.t3 Gene=g4588 Length=349
MEIILFLIFLVILFFYLLDHRYTYWKRKNVPYIEPEYFYGNARGCGTTMFSGLFYREMYN
KLKKFKPIAGFYLYSQPAIMVTDLDLIKTIFVKDFNSFHERGGYYNEKDDPTSANMAVLE
GHKWKILRNKVTPVFTSEKIKKMFSIIGNVADRMIDRIAFESKEVGSIDVKTLFTRYTTD
VIGEIAFGISCNSLNDYSAPFYKFGTEAFTNLSFLKRTFTMYYPNLSRKLGITVNRPEIV
AFYKDVVEQTIKYREENNIERNDVFSLLIKLMKNSQLTFNEVLTQSIMFFLGGYETTSKV
MMFTTYLLSQHKEIREKLRKNIAEALAIHNGEFTYEAVNEMHYLEQCIN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4588.t3 | Coils | Coil | Coil | 308 | 328 | - |
| 7 | g4588.t3 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 13 | 349 | 2.3E-75 |
| 2 | g4588.t3 | PANTHER | PTHR24292 | CYTOCHROME P450 | 5 | 349 | 4.6E-101 |
| 3 | g4588.t3 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 5 | 349 | 4.6E-101 |
| 5 | g4588.t3 | PRINTS | PR00464 | Group II E-class P450 signature | 121 | 141 | 5.2E-9 |
| 4 | g4588.t3 | PRINTS | PR00464 | Group II E-class P450 signature | 176 | 194 | 5.2E-9 |
| 1 | g4588.t3 | Pfam | PF00067 | Cytochrome P450 | 40 | 349 | 1.4E-48 |
| 10 | g4588.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 11 | g4588.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 12 | g4588.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 13 | g4588.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 9 | g4588.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 349 | - |
| 6 | g4588.t3 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 20 | 349 | 2.62E-61 |
| 14 | g4588.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 18 | - |
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