General information for g52.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable cytochrome P450 6a14.
Parent gene
- The parent gene g52 is located on chr_3: 421987..424718 (+ 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 | g52 | g52.t1 | TSS | g52.t1 | 421946 | 421946 |
| chr_3 | g52 | g52.t1 | isoform | g52.t1 | 421987 | 424718 |
| chr_3 | g52 | g52.t1 | exon | g52.t1.exon1 | 421987 | 422891 |
| chr_3 | g52 | g52.t1 | cds | g52.t1.CDS1 | 421987 | 422891 |
| chr_3 | g52 | g52.t1 | exon | g52.t1.exon2 | 423636 | 423805 |
| chr_3 | g52 | g52.t1 | cds | g52.t1.CDS2 | 423636 | 423805 |
| chr_3 | g52 | g52.t1 | exon | g52.t1.exon3 | 424191 | 424418 |
| chr_3 | g52 | g52.t1 | cds | g52.t1.CDS3 | 424191 | 424418 |
| chr_3 | g52 | g52.t1 | exon | g52.t1.exon4 | 424478 | 424500 |
| chr_3 | g52 | g52.t1 | cds | g52.t1.CDS4 | 424478 | 424500 |
| chr_3 | g52 | g52.t1 | exon | g52.t1.exon5 | 424554 | 424718 |
| chr_3 | g52 | g52.t1 | cds | g52.t1.CDS5 | 424554 | 424718 |
| chr_3 | g52 | g52.t1 | TTS | g52.t1 | NA | NA |
Sequences
>g52.t1 Gene=g52 Length=1491
ATGTCTTTAGCTTTATTTTTAACATTTTCTGTGGCATTAGTGTCATTAATTTATTTGTGG
GTTAAAAAGAAATATTCATTTCATGCCGAAAACGGATTTCTTTACGATGAACCTTCATTT
CCATTCGGAAGTTTTAAAGGTGTTGTGACAAAAACTCATCCTGTTTATATAATGAAAAGA
ATTTATGACAAATTCAAAGGAAAAGCTCCAGCAGTGGGATTTTATCGACTTCTTTCACCT
TCAGTAATGATTCTTGACCTCGATTTAATCAAAACAATTTTAATTCGAGATTTCGATAAT
TTTCATAATCGTGGAATTTATTATAATGAAGTTCATGATCCACTTAGTGCCCATTTGTTT
AATATTGAAGATCAAGCTTGGAGAAAAATGAGAGTAAAATTAACACCAACGTTCACAAGT
AATAAAATGAAAATGATGTTTACAACAGTTCTAAATGTCTCAAATCATATGGTTGAAATG
ATAAAAAGTGAAGAAAATTTAGACATGATTGAAGTAAAAGAAATTCTTGCAAAATTTACA
ACAGATGTAATAGGAAGTTCCGCATTTGGGCTAAATTTAAATGCAATTAAAGATCCAAAT
TCGGAATTTCGACGAATGGGAAGAAAAGTTTTCAATACAAACACAAATGTCATTCTTAAA
TTTATGATTTTTAATGCTTTCAAAAGCACAGCAAGAAAATTTGGTGGAAGAATTTTTGAT
GCTGAAGTGACTGATTTTTTTACGAGAATTGTAAAAGAAACAATTGATTATCGATTAAAA
AATAAAATTGAAAGAAATGATTTTATGGATCTTATGATAAAAATGTATATTGAACCGGAT
GAAAATGGTGATAAATTGACATTCAACCAAGTGCTTGCACAAACTTTTTTATTTTTTATA
GCAGGATTTGAAACTTCTTCAAGTACATTAACTTTTGTACTTTACAATCTTGCATTAAAT
CAAGACATTCAAGATAAATTGCGTGACGAAATTAAATCAACAATTTTGAAGTACGATAAT
AAAATCACTTATGAAGCTATGAATGACATGAAATATTTACAAATGGTCATAGATGAAACT
CTAAGACTTCAAGGACCAGTTTTAGGTCAAATAAGAATTGCAGACAATGATTATCAAATT
CCAAATACAAAATTAGTGATTCGCAAAGGGACACATATTTCTATTCCAACTTATTGCATT
CATCAGGATCCTGAATATTATCCAGAACCAGAGAAATTTGATCCCGAAAGATTTAATGAA
GAGAATAAAAAGAATCGACATCAAATGGCTTTTACTGCTTTTGGTTCAGGACCAAGAAAT
TGTATTGGTGAAAGGTTTGGTTATATGCAGAGTAAAATAGGACTTATAAGTCTTTTGCTG
AATTTTAAATTTCATCCAACTGAAAAAACTCAAGTTCCAATGATTTTTGACAAGAGATCG
CCAATTTTAGCTCCGCCAGATGGAATGTGGTTGAAAGTGGAAAAGCTTTGA
>g52.t1 Gene=g52 Length=496
MSLALFLTFSVALVSLIYLWVKKKYSFHAENGFLYDEPSFPFGSFKGVVTKTHPVYIMKR
IYDKFKGKAPAVGFYRLLSPSVMILDLDLIKTILIRDFDNFHNRGIYYNEVHDPLSAHLF
NIEDQAWRKMRVKLTPTFTSNKMKMMFTTVLNVSNHMVEMIKSEENLDMIEVKEILAKFT
TDVIGSSAFGLNLNAIKDPNSEFRRMGRKVFNTNTNVILKFMIFNAFKSTARKFGGRIFD
AEVTDFFTRIVKETIDYRLKNKIERNDFMDLMIKMYIEPDENGDKLTFNQVLAQTFLFFI
AGFETSSSTLTFVLYNLALNQDIQDKLRDEIKSTILKYDNKITYEAMNDMKYLQMVIDET
LRLQGPVLGQIRIADNDYQIPNTKLVIRKGTHISIPTYCIHQDPEYYPEPEKFDPERFNE
ENKKNRHQMAFTAFGSGPRNCIGERFGYMQSKIGLISLLLNFKFHPTEKTQVPMIFDKRS
PILAPPDGMWLKVEKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g52.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 16 | 496 | 2.4E-133 |
| 2 | g52.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 8 | 496 | 8.7E-181 |
| 3 | g52.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 8 | 496 | 8.7E-181 |
| 6 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 89 | 110 | 4.1E-18 |
| 4 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 290 | 307 | 4.1E-18 |
| 12 | g52.t1 | PRINTS | PR00385 | P450 superfamily signature | 301 | 318 | 3.0E-10 |
| 5 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 310 | 336 | 4.1E-18 |
| 10 | g52.t1 | PRINTS | PR00385 | P450 superfamily signature | 355 | 366 | 3.0E-10 |
| 8 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 396 | 420 | 4.1E-18 |
| 9 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 431 | 441 | 4.1E-18 |
| 11 | g52.t1 | PRINTS | PR00385 | P450 superfamily signature | 432 | 441 | 3.0E-10 |
| 7 | g52.t1 | PRINTS | PR00463 | E-class P450 group I signature | 441 | 464 | 4.1E-18 |
| 13 | g52.t1 | PRINTS | PR00385 | P450 superfamily signature | 441 | 452 | 3.0E-10 |
| 1 | g52.t1 | Pfam | PF00067 | Cytochrome P450 | 47 | 488 | 9.5E-101 |
| 17 | g52.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 18 | g52.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 19 | g52.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 20 | g52.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 16 | g52.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 496 | - |
| 22 | g52.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 434 | 443 | - |
| 14 | g52.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 49 | 494 | 3.41E-112 |
| 21 | g52.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 2 | 21 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g52/g52.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g52.t1.fa.iupred3.txt does not exist
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 transcript has been annotated with K14999 (cytochrome P450 family 6 [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. There were no conditions that were differentially expressed