General information for g4970.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 CYP12A2.
Parent gene
- The parent gene g4970 is located on chr_2: 6211378..6212287 (+ 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 | g4970 | g4970.t8 | TSS | g4970.t8 | 6210086 | 6210086 |
| chr_2 | g4970 | g4970.t8 | isoform | g4970.t8 | 6210139 | 6212287 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon1 | 6210139 | 6210362 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS1 | 6210139 | 6210362 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon2 | 6210429 | 6210492 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS2 | 6210429 | 6210492 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon3 | 6210552 | 6210781 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS3 | 6210552 | 6210781 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon4 | 6211044 | 6211319 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS4 | 6211044 | 6211319 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon5 | 6211379 | 6211521 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS5 | 6211379 | 6211521 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon6 | 6211656 | 6212071 |
| chr_2 | g4970 | g4970.t8 | cds | g4970.t8.CDS6 | 6211656 | 6211705 |
| chr_2 | g4970 | g4970.t8 | exon | g4970.t8.exon7 | 6212125 | 6212287 |
| chr_2 | g4970 | g4970.t8 | TTS | g4970.t8 | 6212308 | 6212308 |
Sequences
>g4970.t8 Gene=g4970 Length=1516
ATGTTGATCCGCCAGACTGCTTCTATTTCTCGACGTCTTTTGACGACTACATCCACGTCA
TTCAGCCTTGACAATCAATTGAGTCAAAATAAGTCATTCTCTGAAATACCTTCTATTTCA
GCTCTTAAAGTTGTGGTTCGAAATATACCAGGTGGAAAATACTATAATAAATCTATGACA
CAGCTTCATGAGCTTTTATATGATGAATATGGATCTATATTGAGATTTCCTGGATTATTT
GGTCGACCACCAGTAGTTTTTGCATATGACGCAAAAGATTTTGAAAAAGTATATAGGAAT
GAAGGTGTATGGCCAGAGAGATTAAACTTGGATTCATTAGTTTATTATAGAAAAACAAAG
CGTTCTGACATTTATGATAAATTTGCTGGTTTATTTTCTTCTCAAGGTGAAGAATGGCAC
AGTATGAGAACAATTACCAATCCGATTTTGATGCAACCAAAAACTATGAAACTTTATTGC
ACACAAGTTGATGAAATAGCGAAGGAATTTGTCGGAATCATGCGGAAATTAAGAGATGAG
AAATGTGAAATGCCTGCTGATTTTAGCAATTACATAAATTCATGGTCGTTAGAGTCAGTT
GTTGCTGTTGCTCTAGAAAGACGTTTAAATATATTGAGTGGGTCTTCTAATGATGAAAAA
GCTCAAGAGCTCATCAAAAATATTAGAATATTTTTTGAAAAATCTTTTGAATTTGATGGA
CTTCCTTCAGTTTGGCGTTACTATGAAACAAAAAGTTTCAAAGATTTCCTAAAAGTTTAT
GATACGATAACTAATATTGTGCTGTATTTTATTGAAGAAGCAGTAGCAAGAATAGAATCA
AATCCTTCTTTATCATCTAACGAAGATGGTATACTGAGAAAACTTTTAAAAATTGATAAA
AAAGCTGCTGTTGTTATGGCAAGCGACATGCTATTAGACAGCAACAGCAGCTATAAACAC
GCTTTACTGCCTCGCAAAAAATCCTGACAAACAGGAAATTCTTCGAAAGGAATTGATAAA
CATTTTGCAAACGAAGGAAACACAATTGACTGCCGAAAATATGAAAAATTTACCATATTT
AAGAGGTGTAATCAAAGAAACATTGAGAATTATGCCAGTCATTAGTGGGACAGCTAGAAA
GGTATCAAATGATGTCAGTATATCGGGATATAAAGTACCTGCTGGTACACATGTGATCAT
GGTGCCTATATTTGAAACTACAAATGAAAAGCAATATCCACAGCCTGAAAAGTTTATGCC
TGAACGATGGCTCCGTGAAAATAACGACCCACAATGTCCTCATGCTAAAAATGCCAATCC
ATTTACATTTCTTCCATTTGGTTTTGGAAGCAGAATGTGCATTGGACGTCGTTTGGCTGA
ACTGGAAATTGAAGTGTTGATTGCAAATGTCATCAGAAATTTTAAGCTTGAATGGCATCA
TCCTGATATGAAAATTAAAAGTACTTTTGTAAACCTCCCAATTTCAGATTTAAAATTTAA
AGCTATTGATTTATGA
>g4970.t8 Gene=g4970 Length=328
MLIRQTASISRRLLTTTSTSFSLDNQLSQNKSFSEIPSISALKVVVRNIPGGKYYNKSMT
QLHELLYDEYGSILRFPGLFGRPPVVFAYDAKDFEKVYRNEGVWPERLNLDSLVYYRKTK
RSDIYDKFAGLFSSQGEEWHSMRTITNPILMQPKTMKLYCTQVDEIAKEFVGIMRKLRDE
KCEMPADFSNYINSWSLESVVAVALERRLNILSGSSNDEKAQELIKNIRIFFEKSFEFDG
LPSVWRYYETKSFKDFLKVYDTITNIVLYFIEEAVARIESNPSLSSNEDGILRKLLKIDK
KAAVVMASDMLLDSNSSYKHALLPRKKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4970.t8 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 25 | 314 | 0 |
| 2 | g4970.t8 | PANTHER | PTHR24291:SF155 | CYTOCHROME P450 301B1 | 30 | 312 | 0 |
| 3 | g4970.t8 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 30 | 312 | 0 |
| 1 | g4970.t8 | Pfam | PF00067 | Cytochrome P450 | 54 | 298 | 0 |
| 4 | g4970.t8 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 49 | 300 | 0 |
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.
