General information for g13589.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 4C1.
Parent gene
- The parent gene g13589 is located on chr_1: 31106373..31108404 (+ 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 | g13589 | g13589.t1 | isoform | g13589.t1 | 31106373 | 31108404 |
| chr_1 | g13589 | g13589.t1 | exon | g13589.t1.exon1 | 31106373 | 31106437 |
| chr_1 | g13589 | g13589.t1 | cds | g13589.t1.CDS1 | 31106373 | 31106437 |
| chr_1 | g13589 | g13589.t1 | exon | g13589.t1.exon2 | 31106903 | 31107704 |
| chr_1 | g13589 | g13589.t1 | cds | g13589.t1.CDS2 | 31106903 | 31107704 |
| chr_1 | g13589 | g13589.t1 | exon | g13589.t1.exon3 | 31107770 | 31108166 |
| chr_1 | g13589 | g13589.t1 | cds | g13589.t1.CDS3 | 31107770 | 31108166 |
| chr_1 | g13589 | g13589.t1 | exon | g13589.t1.exon4 | 31108223 | 31108404 |
| chr_1 | g13589 | g13589.t1 | cds | g13589.t1.CDS4 | 31108223 | 31108404 |
| chr_1 | g13589 | g13589.t1 | TSS | g13589.t1 | NA | NA |
| chr_1 | g13589 | g13589.t1 | TTS | g13589.t1 | NA | NA |
Sequences
>g13589.t1 Gene=g13589 Length=1446
ATGTCATTAAATATTTTTGATGTTGTAAATAAAATTAAATCAAAAGTTTACAAGCAGATA
ACAAGATGGAAAAGAAGAAGATTGCATGAATTAGCAAATAAAATCCCAGGATTTCGTGGT
TTGCCATTCATAGGAGAAATTCATAAATTTTCCAATCTTCAATTGATGGATTATACTAAA
AAGCTTATGAGTTACTGTGAAAATGATAATAAAATTACAAAAGCTTGGTTTGGTCCTTTA
TTGGTGATTTTAACTGAAAATGCTGATTGTATTCACACAATTTTAAATTCATCTCATTCA
TTACATAAACCTTCATTATTTTACAATGCTTTCTATATGGATCGAGGGTTATTAGCAGGA
AACGGTGAAGAATATGATAGACATAGGAAAATTCTTAATAAATCATTTACTGTCAAATTA
GTTCAAAAATTAGTGCCAACTTTTAATGAGAAATCAAAAACATGTGTTGAAAAATTAAAG
AAAAATTTAAATTGTGATGAATTTGATGCTTTTGAATATGTTGGAACTTGCACACTTGAA
TCATTTTCAACAGGTCAATTGAACTATCATGAGGATCTTTATGACAGCAACTTTATGAAA
TATATTGATCTAACAAGACCATTAATTATGAAAAGAATGTTCTCACCTTGGTACAATTTT
AAGCCACTTTATAAATTGTCATCGCTTTGTAAGAAATTGGATGAATATTTTAAAATTCTA
ATGGAAAATATTGAAAATATCAAGAAATCTCATTTCGAATCATCTGAAGGAATTCATAAA
GATATTGTGATAAATTTATTAATGGATAAAAATAATAATTTTAGTGAAGAAGAACTGAAA
GATGAATTAATTACTTTTATTTTTGCTGGACATGAAGCAACTGCAATTTCCTTATCATCA
GCAGTTCTTATGCTCGCAATTCATCAAGATGTTCAAAAGCGTGTAATCGATGAAATCAAT
GAGATTGTTGGATCAACAGAAGAAATCGATTACGAGTTACTTTCAAATTTACCTTACATG
GAAATGGTAATTAAGGAATCATTAAGATTGTTTCCTGCTGGTGGTATTTTAGGTCGACAA
ACAACAGATGAAATGGAAATTGGTGGTTATAAAGTACCTAAAGGAACTGCTTTGATTCTT
TCTATTTTTGGAATGCAAAGAAGTGCAAAATATTGGGGATATGATGCTCATTTATTTAGA
CCTGAAAGATTTGAGTCTGAAAATTTGAAAAATGTTCATCCTTTTGCTTTTGAGCCATTT
TCAGGAGGCAAAAGAGTTTGCATAGGAATAAAATATGCAATGGCTTTTATGAAAACATTT
CTAATAAATTTTTTAAGAGCTTACAAAATAAGTTCAACATTAAAATTTGAAGACTTAACT
TTAGATATGGTTCCAACATTGATAATTTCACAAAAATATATGATTAAAATTGAAAATAGA
ACTTAG
>g13589.t1 Gene=g13589 Length=481
MSLNIFDVVNKIKSKVYKQITRWKRRRLHELANKIPGFRGLPFIGEIHKFSNLQLMDYTK
KLMSYCENDNKITKAWFGPLLVILTENADCIHTILNSSHSLHKPSLFYNAFYMDRGLLAG
NGEEYDRHRKILNKSFTVKLVQKLVPTFNEKSKTCVEKLKKNLNCDEFDAFEYVGTCTLE
SFSTGQLNYHEDLYDSNFMKYIDLTRPLIMKRMFSPWYNFKPLYKLSSLCKKLDEYFKIL
MENIENIKKSHFESSEGIHKDIVINLLMDKNNNFSEEELKDELITFIFAGHEATAISLSS
AVLMLAIHQDVQKRVIDEINEIVGSTEEIDYELLSNLPYMEMVIKESLRLFPAGGILGRQ
TTDEMEIGGYKVPKGTALILSIFGMQRSAKYWGYDAHLFRPERFESENLKNVHPFAFEPF
SGGKRVCIGIKYAMAFMKTFLINFLRAYKISSTLKFEDLTLDMVPTLIISQKYMIKIENR
T
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g13589.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 20 | 481 | 2.2E-101 |
| 2 | g13589.t1 | PANTHER | PTHR24291:SF145 | CYTOCHROME P450 4AA1-RELATED | 22 | 455 | 3.5E-77 |
| 3 | g13589.t1 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 22 | 455 | 3.5E-77 |
| 4 | g13589.t1 | PRINTS | PR00463 | E-class P450 group I signature | 278 | 295 | 2.8E-10 |
| 10 | g13589.t1 | PRINTS | PR00385 | P450 superfamily signature | 289 | 306 | 3.9E-9 |
| 5 | g13589.t1 | PRINTS | PR00463 | E-class P450 group I signature | 298 | 324 | 2.8E-10 |
| 9 | g13589.t1 | PRINTS | PR00385 | P450 superfamily signature | 342 | 353 | 3.9E-9 |
| 6 | g13589.t1 | PRINTS | PR00463 | E-class P450 group I signature | 417 | 427 | 2.8E-10 |
| 8 | g13589.t1 | PRINTS | PR00385 | P450 superfamily signature | 418 | 427 | 3.9E-9 |
| 7 | g13589.t1 | PRINTS | PR00463 | E-class P450 group I signature | 427 | 450 | 2.8E-10 |
| 11 | g13589.t1 | PRINTS | PR00385 | P450 superfamily signature | 427 | 438 | 3.9E-9 |
| 1 | g13589.t1 | Pfam | PF00067 | Cytochrome P450 | 36 | 452 | 6.5E-78 |
| 13 | g13589.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 420 | 429 | - |
| 12 | g13589.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 35 | 480 | 3.41E-95 |
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. There were no conditions that were differentially expressed