General information for g4588.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable cytochrome P450 6a19.
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.t1 | isoform | g4588.t1 | 3344916 | 3348783 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon1 | 3344916 | 3345092 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS1 | 3344916 | 3345092 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon2 | 3345151 | 3345269 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS2 | 3345151 | 3345269 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon3 | 3345345 | 3345413 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS3 | 3345345 | 3345413 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon4 | 3345464 | 3345637 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS4 | 3345464 | 3345637 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon5 | 3346005 | 3346426 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS5 | 3346005 | 3346426 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon6 | 3346685 | 3346857 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS6 | 3346685 | 3346857 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon7 | 3346919 | 3347160 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS7 | 3346919 | 3347160 |
| chr_2 | g4588 | g4588.t1 | exon | g4588.t1.exon8 | 3347736 | 3348783 |
| chr_2 | g4588 | g4588.t1 | cds | g4588.t1.CDS8 | 3347736 | 3348783 |
| chr_2 | g4588 | g4588.t1 | TSS | g4588.t1 | 3348808 | 3348808 |
| chr_2 | g4588 | g4588.t1 | TTS | g4588.t1 | NA | NA |
Sequences
>g4588.t1 Gene=g4588 Length=2424
ATGGAAATAATTTTATTCTTGATATTTTTGGTGATTTTATTTTTCTATCTTCTTGATCAT
CGATACACTTACTGGAAACGCAAAAATGTTCCCTATATTGAACCTGAATATTTTTATGGA
AACGCTCGTGGTTGTGGCACAACAATGTTTTCAGGTCTTTTCTACAGAGAAATGTATAAT
AAATTAAAGAAATTTAAGCCAATTGCAGGTTTTTATTTGTATTCTCAACCAGCAATTATG
GTGACAGATCTTGATTTGATAAAAACAATTTTTGTAAAAGATTTCAACAGTTTTCATGAA
CGTGGTGGTTATTATAATGAAAAAGATGATCCAACTAGCGCAAATATGGCAGTACTTGAA
GGCCATAAATGGAAAATATTGAGAAATAAAGTAACTCCGGTTTTCACAAGTGAAAAGATT
AAAAAAATGTTTTCAATAATTGGTAATGTTGCTGATAGAATGATTGACCGAATTGCATTT
GAAAGTAAAGAAGTTGGCTCAATAGATGTGAAAACACTTTTTACAAGATATACAACTGAT
GTTATTGGTGAAATTGCGTTTGGAATTTCTTGCAATAGTCTAAATGATTATTCTGCACCA
TTTTATAAATTTGGCACAGAAGCGTTTACTAATTTGAGTTTTTTAAAACGAACTTTTACT
ATGTATTATCCTAATTTAAGTCGTAAATTAGGCATTACTGTTAACAGACCAGAAATTGTT
GCATTTTATAAAGATGTCGTGGAGCAAACAATTAAATATCGAGAAGAAAATAACATTGAA
CGAAATGATGTTTTTTCATTGTTAATAAAATTAATGAAAAATTCTCAATTAACATTCAAT
GAAGTTTTAACTCAAAGCATAATGTTTTTCTTGGGTGGTTATGAAACAACTTCAAAAGTT
ATGATGTTCACAACATATTTGTTAAGCCAACATAAGGAAATCAGAGAAAAATTACGAAAA
AATATTGCAGAAGCATTAGCAATACATAATGGAGAATTTACTTATGAAGCTGTCAATGAA
ATGCATTATTTAGAGCAATGCATTAATGAATCAATGAGAATGTATCCAGTTGGACAAGCA
AGTAGAAGAATTGCTACAAAAGATTATCAAGTGCCAAATACAAAAGTAGTGATAGAAAAA
GGAACTCCTGTTTTTGTTTCATTTTATGGGATTAATCTTGACCCAGAGATTTATCCTAAT
CCTGAAAAGTTTGATCCTGATAGATTTTCACCTGAAGAAGTTGAGAAAAGACATAGTTCT
TCCTTTACTGTCTTTGGGCTAGGACCTAGAATGTGCCTTGCATCTCGTTTTGCAATGGTT
GAATTAAAAGTTACTATGGCCAAAATATTGATGAATTATGATTTCGAACTTGATCATTCT
AAAACACCATCGACTCTTACTTATGAAGTTCGACGTGTCATACTTACACCAAAGGAGGAT
ATATTTATAAATTTTAAAAGATTCAATATCCCACATATCAAACCAAAATTTTTCTACGGG
AATGTCAAAGAATTTCGAGAAACATTCTCTCATGTTGAATTTCTTCAAGACATTTACAAC
AAATTGAAAATTTCAGGTCCAGTAGTTGGAGCATATATTTATTTCTCATCAACAACTATT
TTTACTGATACTGAAATCATCAAGACAATTTTGTTGAAAAATTTTGAAAATTTACTTTAT
CGTGGAATTTATTACAATGAAAAGCATGACCCAGCCAGTGCCGATTTAGTAAACCTTGAA
GATGAAAAATGGAAAAATTTAAGATACAAAATTACTCCAACATTTTCGAGTTCAAAATTA
AAATTAATGCTGCCAATTATTGAAAGTGTTACAGACAAATTTATGAGTGCTATAGAAAAA
GAATCAAGTGGAAATGAATCATTAACTGGATTCGAAACTACAGCAACTACTCTAACTTAT
TGCATATTCGAAGTGTCAAATAGCATTGAAATTCAAAAATTAGCTAGAGAAACTGTGAGG
GAAGTTTTAGAAAAATTCAATGGGCAATATTCTTATCAAGCATTAAATGAAATGAAATAT
TTAGAATGGTGCCTTAAAGAAACAATGAGAAAATATCCTCCATTCACATTTCTCAGAAGA
ATGGTTAGAAAAGATTTTCATGTTCCTGGATTGCAAACACTTACTCCTGTCTATTCTGTT
CATCATGATCCTGACATTTATCCAAAGCCAGAAATAGAAGCAAAACGACATGAATTTTCA
TATTTAGCATTTGGTCATGGTCCACAAATATGCATAGGTGAACGTTTTGCAATGTTAGAA
ATGAAATTGGCTATGGCAAAAATTTTGATGAACTACAATTTTGAACTGGACACAATAAAA
ACAGCAATTCCATTGAAATTTGACAAGAAAAAAATCATTCTGACAACAGCCGATGAGATT
TTTGTTAAAGTTAAGTCTTTATGA
>g4588.t1 Gene=g4588 Length=807
MEIILFLIFLVILFFYLLDHRYTYWKRKNVPYIEPEYFYGNARGCGTTMFSGLFYREMYN
KLKKFKPIAGFYLYSQPAIMVTDLDLIKTIFVKDFNSFHERGGYYNEKDDPTSANMAVLE
GHKWKILRNKVTPVFTSEKIKKMFSIIGNVADRMIDRIAFESKEVGSIDVKTLFTRYTTD
VIGEIAFGISCNSLNDYSAPFYKFGTEAFTNLSFLKRTFTMYYPNLSRKLGITVNRPEIV
AFYKDVVEQTIKYREENNIERNDVFSLLIKLMKNSQLTFNEVLTQSIMFFLGGYETTSKV
MMFTTYLLSQHKEIREKLRKNIAEALAIHNGEFTYEAVNEMHYLEQCINESMRMYPVGQA
SRRIATKDYQVPNTKVVIEKGTPVFVSFYGINLDPEIYPNPEKFDPDRFSPEEVEKRHSS
SFTVFGLGPRMCLASRFAMVELKVTMAKILMNYDFELDHSKTPSTLTYEVRRVILTPKED
IFINFKRFNIPHIKPKFFYGNVKEFRETFSHVEFLQDIYNKLKISGPVVGAYIYFSSTTI
FTDTEIIKTILLKNFENLLYRGIYYNEKHDPASADLVNLEDEKWKNLRYKITPTFSSSKL
KLMLPIIESVTDKFMSAIEKESSGNESLTGFETTATTLTYCIFEVSNSIEIQKLARETVR
EVLEKFNGQYSYQALNEMKYLEWCLKETMRKYPPFTFLRRMVRKDFHVPGLQTLTPVYSV
HHDPDIYPKPEIEAKRHEFSYLAFGHGPQICIGERFAMLEMKLAMAKILMNYNFELDTIK
TAIPLKFDKKKIILTTADEIFVKVKSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 25 | g4588.t1 | Coils | Coil | Coil | 308 | 328 | - |
| 24 | g4588.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 13 | 485 | 6.7E-125 |
| 23 | g4588.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 486 | 628 | 3.6E-22 |
| 22 | g4588.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 629 | 805 | 2.2E-48 |
| 4 | g4588.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 5 | 487 | 2.7E-237 |
| 7 | g4588.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 5 | 487 | 2.7E-237 |
| 5 | g4588.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 486 | 623 | 2.7E-237 |
| 8 | g4588.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 486 | 623 | 2.7E-237 |
| 6 | g4588.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 628 | 807 | 2.7E-237 |
| 9 | g4588.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 628 | 807 | 2.7E-237 |
| 15 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 62 | 81 | 7.2E-18 |
| 13 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 281 | 298 | 7.2E-18 |
| 12 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 301 | 327 | 7.2E-18 |
| 11 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 387 | 411 | 7.2E-18 |
| 14 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 422 | 432 | 7.2E-18 |
| 10 | g4588.t1 | PRINTS | PR00463 | E-class P450 group I signature | 432 | 455 | 7.2E-18 |
| 18 | g4588.t1 | PRINTS | PR00385 | P450 superfamily signature | 629 | 646 | 2.2E-9 |
| 16 | g4588.t1 | PRINTS | PR00385 | P450 superfamily signature | 683 | 694 | 2.2E-9 |
| 19 | g4588.t1 | PRINTS | PR00385 | P450 superfamily signature | 742 | 751 | 2.2E-9 |
| 17 | g4588.t1 | PRINTS | PR00385 | P450 superfamily signature | 751 | 762 | 2.2E-9 |
| 3 | g4588.t1 | Pfam | PF00067 | Cytochrome P450 | 40 | 480 | 2.0E-92 |
| 2 | g4588.t1 | Pfam | PF00067 | Cytochrome P450 | 494 | 625 | 2.7E-11 |
| 1 | g4588.t1 | Pfam | PF00067 | Cytochrome P450 | 630 | 801 | 6.3E-39 |
| 27 | g4588.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 28 | g4588.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 29 | g4588.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 30 | g4588.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 19 | - |
| 26 | g4588.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 807 | - |
| 32 | g4588.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 425 | 434 | - |
| 20 | g4588.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 20 | 487 | 1.44E-108 |
| 21 | g4588.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 490 | 788 | 3.12E-60 |
| 31 | g4588.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 3 | 25 | - |
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.
