General information for g52.t2
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 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.t2 | TSS | g52.t2 | 421946 | 421946 |
| chr_3 | g52 | g52.t2 | isoform | g52.t2 | 421987 | 424418 |
| chr_3 | g52 | g52.t2 | exon | g52.t2.exon1 | 421987 | 422891 |
| chr_3 | g52 | g52.t2 | cds | g52.t2.CDS1 | 421987 | 422891 |
| chr_3 | g52 | g52.t2 | exon | g52.t2.exon2 | 423636 | 423805 |
| chr_3 | g52 | g52.t2 | cds | g52.t2.CDS2 | 423636 | 423805 |
| chr_3 | g52 | g52.t2 | exon | g52.t2.exon3 | 424191 | 424418 |
| chr_3 | g52 | g52.t2 | cds | g52.t2.CDS3 | 424191 | 424417 |
| chr_3 | g52 | g52.t2 | TTS | g52.t2 | NA | NA |
Sequences
>g52.t2 Gene=g52 Length=1303
ATGTCTTTAGCTTTATTTTTAACATTTTCTGTGGCATTAGTGTCATTAATTTATTTGTGG
GTTAAAAAGAAATATTCATTTCATGCCGAAAACGGATTTCTTTACGATGAACCTTCATTT
CCATTCGGAAGTTTTAAAGGTGTTGTGACAAAAACTCATCCTGTTTATATAATGAAAAGA
ATTTATGACAAATTCAAAGGAAAAGCTCCAGCAGTGGGATTTTATCGACTTCTTTCACCT
TCAGTAATGATTCTTGACCTCGATTTAATCAAAACAATTTTAATTCGAGATTTCGATAAT
TTTCATAATCGTGGAATTTATTATAATGAAGTTCATGATCCACTTAGTGCCCATTTGTTT
AATATTGAAGATCAAGCTTGGAGAAAAATGAGAGTAAAATTAACACCAACGTTCACAAGT
AATAAAATGAAAATGATGTTTACAACAGTTCTAAATGTCTCAAATCATATGGTTGAAATG
ATAAAAAGTGAAGAAAATTTAGACATGATTGAAGTAAAAGAAATTCTTGCAAAATTTACA
ACAGATGTAATAGGAAGTTCCGCATTTGGGCTAAATTTAAATGCAATTAAAGATCCAAAT
TCGGAATTTCGACGAATGGGAAGAAAAGTTTTCAATACAAACACAAATGTCATTCTTAAA
TTTATGATTTTTAATGCTTTCAAAAGCACAGCAAGAAAATTTGGTGGAAGAATTTTTGAT
GCTGAAGTGACTGATTTTTTTACGAGAATTGTAAAAGAAACAATTGATTATCGATTAAAA
AATAAAATTGAAAGAAATGATTTTATGGATCTTATGATAAAAATGTATATTGAACCGGAT
GAAAATGGTGATAAATTGACATTCAACCAAGTGCTTGCACAAACTTTTTTATTTTTTATA
GCAGGATTTGAAACTTCTTCAAGTACATTAACTTTTGTACTTTACAATCTTGCATTAAAT
CAAGACATTCAAGATAAATTGCGTGACGAAATTAAATCAACAATTTTGAAGTACGATAAT
AAAATCACTTATGAAGCTATGAATGACATGAAATATTTACAAATGGTCATAGATGAAACT
CTAAGACTTCAAGGACCAGTTTTAGGTCAAATAAGAATTGCAGACAATGATTATCAAATT
CCAAATACAAAATTAGTGATTCGCAAAGGGACACATATTTCTATTCCAACTTATTGCATT
CATCAGGATCCTGAATATTATCCAGAACCAGAGAAATTTGATCCCGAAAGATTTAATGAA
GAGAATAAAAAGAATCGACATCAAATGGCTTTTACTGCTTTTG
>g52.t2 Gene=g52 Length=434
MSLALFLTFSVALVSLIYLWVKKKYSFHAENGFLYDEPSFPFGSFKGVVTKTHPVYIMKR
IYDKFKGKAPAVGFYRLLSPSVMILDLDLIKTILIRDFDNFHNRGIYYNEVHDPLSAHLF
NIEDQAWRKMRVKLTPTFTSNKMKMMFTTVLNVSNHMVEMIKSEENLDMIEVKEILAKFT
TDVIGSSAFGLNLNAIKDPNSEFRRMGRKVFNTNTNVILKFMIFNAFKSTARKFGGRIFD
AEVTDFFTRIVKETIDYRLKNKIERNDFMDLMIKMYIEPDENGDKLTFNQVLAQTFLFFI
AGFETSSSTLTFVLYNLALNQDIQDKLRDEIKSTILKYDNKITYEAMNDMKYLQMVIDET
LRLQGPVLGQIRIADNDYQIPNTKLVIRKGTHISIPTYCIHQDPEYYPEPEKFDPERFNE
ENKKNRHQMAFTAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g52.t2 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 16 | 434 | 6.2E-110 |
| 2 | g52.t2 | PANTHER | PTHR24292 | CYTOCHROME P450 | 8 | 434 | 1.8E-154 |
| 3 | g52.t2 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 8 | 434 | 1.8E-154 |
| 6 | g52.t2 | PRINTS | PR00464 | Group II E-class P450 signature | 124 | 144 | 1.6E-14 |
| 5 | g52.t2 | PRINTS | PR00464 | Group II E-class P450 signature | 178 | 196 | 1.6E-14 |
| 4 | g52.t2 | PRINTS | PR00464 | Group II E-class P450 signature | 390 | 405 | 1.6E-14 |
| 1 | g52.t2 | Pfam | PF00067 | Cytochrome P450 | 46 | 434 | 4.2E-79 |
| 12 | g52.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 13 | g52.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 14 | g52.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 16 | g52.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 11 | g52.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 295 | - |
| 15 | g52.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 296 | 318 | - |
| 10 | g52.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 319 | 434 | - |
| 8 | g52.t2 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 49 | 434 | 2.62E-91 |
| 7 | g52.t2 | 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.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g52.t2.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: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