General information for g12530.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 4d1.
Parent gene
- The parent gene g12530 is located on chr_1: 24270415..24271106 (- 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_1 | g12530 | g12530.t10 | TTS | g12530.t10 | 24268524 | 24268524 |
| chr_1 | g12530 | g12530.t10 | isoform | g12530.t10 | 24268592 | 24271106 |
| chr_1 | g12530 | g12530.t10 | exon | g12530.t10.exon1 | 24268592 | 24268754 |
| chr_1 | g12530 | g12530.t10 | cds | g12530.t10.CDS1 | 24268592 | 24268754 |
| chr_1 | g12530 | g12530.t10 | exon | g12530.t10.exon2 | 24268810 | 24269523 |
| chr_1 | g12530 | g12530.t10 | cds | g12530.t10.CDS2 | 24268810 | 24269450 |
| chr_1 | g12530 | g12530.t10 | exon | g12530.t10.exon3 | 24270527 | 24271106 |
| chr_1 | g12530 | g12530.t10 | TSS | g12530.t10 | 24271137 | 24271137 |
Sequences
>g12530.t10 Gene=g12530 Length=1457
ATGTTTCTCTTTACAATTTTGTCAATTTTAATTATTGCTTTAATATCATGGTATAAAAAG
CATTTTAGGCGGCGTGATTATTTATATTCAAAAATTCCTCATCCATATCATATACCGCTT
CTACATCATAGCCTTGAATTCATCGGCAAAACGCCTAAAGAGCTATTTGATTGGATGGAA
GACATGAGCAATGAACTTGGCAACGTATATTTCTTTTCTACGGGTATTTTTGGTAGTGGT
TTTGCAGTAATTTCTGATGTAAAAATTGTAGAAGCATTGCTGTCAAGTCAAGTACAATTG
GATAAGACAATCGATTATAATTATTTAATAGATTGGATTGGAACAGGCTTACTTATTTCA
AATTCAAAGAAATGGTTTACTAGAAGAAAACTTTTGACACCAGGATTTCATTTTAAAATT
TTAGAGAGATTTGTAGAAATTCAAAATAATCAAGCAAATGTTTTCGTGAATATACTTCAA
GAATATGATGGGAAAGAAGTTGATATTTTTCCACTTGCTAGTTTATATGCACTTGATACC
GTATGTGGCAAGTTTTGAAGTTATAATTTAAACTTTAAATAATCACAAGGATCATCACAA
TAAAATCATTTGATACAACAAAGCAAATTGAATTTCTGTATCGCTTTACAGAAATGTATC
GCAGAGAAAAGAAATTAATTGAAGAATTGCATGCGTTCACTGACAAAATTATTCAATCGC
GTAGAGAAGAATTACTGATGCACAATGAAGAAACGTCAGAGCAAAATGATGAGATCGGAA
CAAAAAAGAAGAAAGCTCTTTTGGATATTTTGTTGAGTTCAAGAGTTGAAGGAGAGCCAT
TAAAAAATTCCGATATTCGAGAAGAAGTTGATACATTCATGTTTGCCGGTCATGACACCT
CTAAAAGTGGTATTTGTTTTGTATTTTATTGCATTGCTAAGTATCCAGAAGTTCAACAAA
AGGTTTATGAGGAAATAATTGAAGTGCTTGGTGATGAAGAGGAAATAAATTTACAAAAAT
TGAATGAACTGCACTATCTAGAATTGGTGATTCGTGAGTCATTAAGACTTTTTCCACCTG
TACCTTATTATGGACGACAATTAGTAGAAGAGTTAATTACTGAAAAATATACTTTTCCAA
AAGGAATGAATGTGTATGTGTCTCCTTATTTGATGGGAAGAGATGAAAGGATTTTTCCTG
AACCAAAAAAATTTGATCCGCACCGTTTTGAAGTAGAAATGGCTAATGATAAAATTAATC
CCTTTTCGTATGTGCCTTTTTCAGCTGGTCCAAGAAATTGTATTGGCCAAAAATTTGCAC
AATATGAAATGAGAATGATCGCTGCAAAAGTTTTAAGAAAATTTAAATTATCTATTGCTA
GTGAAATCACTATCCTATCAGAATTAGTCTTGAGACCGGAAAATGGAGTAAACTTGAAAA
TCGAGAAGAGAAAATAA
>g12530.t10 Gene=g12530 Length=267
MYRREKKLIEELHAFTDKIIQSRREELLMHNEETSEQNDEIGTKKKKALLDILLSSRVEG
EPLKNSDIREEVDTFMFAGHDTSKSGICFVFYCIAKYPEVQQKVYEEIIEVLGDEEEINL
QKLNELHYLELVIRESLRLFPPVPYYGRQLVEELITEKYTFPKGMNVYVSPYLMGRDERI
FPEPKKFDPHRFEVEMANDKINPFSYVPFSAGPRNCIGQKFAQYEMRMIAAKVLRKFKLS
IASEITILSELVLRPENGVNLKIEKRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g12530.t10 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 1 | 267 | 1.0E-81 |
| 2 | g12530.t10 | PANTHER | PTHR24291:SF143 | CYTOCHROME P450 4D1-RELATED | 2 | 266 | 1.6E-90 |
| 3 | g12530.t10 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 2 | 266 | 1.6E-90 |
| 6 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 67 | 84 | 5.7E-22 |
| 13 | g12530.t10 | PRINTS | PR00385 | P450 superfamily signature | 78 | 95 | 2.0E-11 |
| 8 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 87 | 113 | 5.7E-22 |
| 7 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 130 | 148 | 5.7E-22 |
| 10 | g12530.t10 | PRINTS | PR00385 | P450 superfamily signature | 131 | 142 | 2.0E-11 |
| 5 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 170 | 194 | 5.7E-22 |
| 9 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 206 | 216 | 5.7E-22 |
| 12 | g12530.t10 | PRINTS | PR00385 | P450 superfamily signature | 207 | 216 | 2.0E-11 |
| 4 | g12530.t10 | PRINTS | PR00463 | E-class P450 group I signature | 216 | 239 | 5.7E-22 |
| 11 | g12530.t10 | PRINTS | PR00385 | P450 superfamily signature | 216 | 227 | 2.0E-11 |
| 1 | g12530.t10 | Pfam | PF00067 | Cytochrome P450 | 1 | 257 | 2.1E-77 |
| 15 | g12530.t10 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 209 | 218 | - |
| 14 | g12530.t10 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 2 | 266 | 2.1E-76 |
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.
