General information for g13580.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 9e2.
Parent gene
- The parent gene g13580 is located on chr_1: 31042311..31047040 (+ 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 | g13580 | g13580.t16 | TSS | g13580.t16 | 31040681 | 31040681 |
| chr_1 | g13580 | g13580.t16 | isoform | g13580.t16 | 31040873 | 31042954 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon1 | 31040873 | 31041076 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS1 | 31041054 | 31041076 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon2 | 31041192 | 31041370 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS2 | 31041192 | 31041370 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon3 | 31041434 | 31041466 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS3 | 31041434 | 31041466 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon4 | 31041615 | 31041781 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS4 | 31041615 | 31041781 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon5 | 31041837 | 31042235 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS5 | 31041837 | 31042235 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon6 | 31042300 | 31042714 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS6 | 31042300 | 31042714 |
| chr_1 | g13580 | g13580.t16 | exon | g13580.t16.exon7 | 31042767 | 31042954 |
| chr_1 | g13580 | g13580.t16 | cds | g13580.t16.CDS7 | 31042767 | 31042954 |
| chr_1 | g13580 | g13580.t16 | TTS | g13580.t16 | 31043048 | 31043048 |
Sequences
>g13580.t16 Gene=g13580 Length=1585
ATGTTTATATGGTTTTTATTAATTGTGGCACTTGTTGCTTTGTATAAATATGGCACACGT
AATTTTGATTATTTCCGAGCTAAAGGTGTGCCTTTTAATAAACCAAGATTCTTTGTTGGA
AGTAGATTAGGAATGGTTTTAAAAACAAGCAATATGATTGAATTTGTTGAAGAAATTTAC
AATGAATTTAGAAATGAAAAGTAAAGTATCAGGAATGTTTGAATTTAATCACCCGGCATT
TTTCATTCGTGACCCTGAACTCATTAAAAAATTGGCAGTTAAAGAATTTGATTCATTTAT
GGATCATCGTCTTGTTTTATCAGAAGATGCAGAACCATTATTCGCCAAAGCTCTTTTTGG
TTTGACTGGTCAAAAATGGAAAGATATGAGAGCTACATTGTCTCCTGCATTCACTGGCTC
GAAGATGCGCTTAATGTTCAAATTGATGAATGAAGTGGGATCGAAAATGTCGAAGACTGT
TTGTGATAAAATCAATAAAGGCGCAGACAATAAAGTTGAATTTAAAGAGTTCTCGAGAAA
ATTCACGATTGATATAATAGCAACTTGTGCATTTGGCATTGAAGTTAATTCATTTGAAAA
TGCAAATAATGACTTCATGAGAATTGCAACAAAAGCTACAAACTTTAATTCTTCAGGAAT
GCTTCTTAAATTGATTGGATTTTTTGGATTTCCATGGTTGATGAGTCGATTAAGAGTAAA
ATTTTTAGATAGTGAACTTTACGACTTTTTCGATAATGTCATTACTGAAACAATTAACAC
AAGAGAACGAAAAGAAATTACTCGAAATGACATGATTGATTTACTTTTGCAAGCAAAACA
TGGAAAGCTTGAATATCAAGAAGAAAAATCATCATCTGATGGATTTGCTACTGTTGAAGA
ATCACAAATTGGAAAACAAAAAGTCAAAACTGTCTGGAGCAACCAAGACTTGATGGCTCA
ATGTTTTATCTTCTTCTTTGCTGGTTTCGAAACAGTTTCAAATGTGATGACCTTTATGGC
ATATGAACTCATTCTCAATCCTGATATTCAAAAGAAATTGCAAGATGAAATTGATGCAAT
GAATGCTGAACTCAAAGGAGGTGATTTGACTTATGAAGATGTTCAGAAACTAAAATATAT
GGATATGGTACTTTGTGAAACTTTGAGAATGTGGCCACCAGCTCCTATCATTGATAGAAT
GTGTACAAAAGATTTTCTCTTGGAATATGACAACAAAAAAGTTCAAATTGAAGTTGGCAG
AAATTTCTATATTCCTGTCTATTCTTTGCATCATAACGAAAACTACTTTCCAAATCCGAA
TAGATTTGATCCAGAACGTTTCAGTGATGAAAACAAGAAAAACATCAGACAGGATTGTTA
TTTACCTTTTGGAATTGGTCCAAGGAATTGCATCGGAAATCGTTTCGCTTTACTTGAAGT
CAAGACAATCTTCTATTATCTTCTTTTGAATTTTAATTTTGAAGCAACAAAGGACACACA
AATTCCAATTAAATTGGCAAACAATCAAGCTACTTTCCAATTCGAGAAGGGCTTGCATTG
CGCATTAGTTCCAAGAACAAAATAA
>g13580.t16 Gene=g13580 Length=467
MNLEMKSKVSGMFEFNHPAFFIRDPELIKKLAVKEFDSFMDHRLVLSEDAEPLFAKALFG
LTGQKWKDMRATLSPAFTGSKMRLMFKLMNEVGSKMSKTVCDKINKGADNKVEFKEFSRK
FTIDIIATCAFGIEVNSFENANNDFMRIATKATNFNSSGMLLKLIGFFGFPWLMSRLRVK
FLDSELYDFFDNVITETINTRERKEITRNDMIDLLLQAKHGKLEYQEEKSSSDGFATVEE
SQIGKQKVKTVWSNQDLMAQCFIFFFAGFETVSNVMTFMAYELILNPDIQKKLQDEIDAM
NAELKGGDLTYEDVQKLKYMDMVLCETLRMWPPAPIIDRMCTKDFLLEYDNKKVQIEVGR
NFYIPVYSLHHNENYFPNPNRFDPERFSDENKKNIRQDCYLPFGIGPRNCIGNRFALLEV
KTIFYYLLLNFNFEATKDTQIPIKLANNQATFQFEKGLHCALVPRTK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g13580.t16 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 2 | 467 | 3.3E-125 |
| 2 | g13580.t16 | PANTHER | PTHR24292 | CYTOCHROME P450 | 7 | 450 | 4.8E-183 |
| 3 | g13580.t16 | PANTHER | PTHR24292:SF90 | CYTOCHROME P450 317A1-RELATED | 7 | 450 | 4.8E-183 |
| 8 | g13580.t16 | PRINTS | PR00463 | E-class P450 group I signature | 256 | 273 | 5.8E-22 |
| 11 | g13580.t16 | PRINTS | PR00385 | P450 superfamily signature | 267 | 284 | 4.3E-11 |
| 6 | g13580.t16 | PRINTS | PR00463 | E-class P450 group I signature | 276 | 302 | 5.8E-22 |
| 9 | g13580.t16 | PRINTS | PR00385 | P450 superfamily signature | 322 | 333 | 4.3E-11 |
| 5 | g13580.t16 | PRINTS | PR00463 | E-class P450 group I signature | 365 | 389 | 5.8E-22 |
| 4 | g13580.t16 | PRINTS | PR00463 | E-class P450 group I signature | 400 | 410 | 5.8E-22 |
| 12 | g13580.t16 | PRINTS | PR00385 | P450 superfamily signature | 401 | 410 | 4.3E-11 |
| 7 | g13580.t16 | PRINTS | PR00463 | E-class P450 group I signature | 410 | 433 | 5.8E-22 |
| 10 | g13580.t16 | PRINTS | PR00385 | P450 superfamily signature | 410 | 421 | 4.3E-11 |
| 1 | g13580.t16 | Pfam | PF00067 | Cytochrome P450 | 15 | 451 | 6.9E-81 |
| 16 | g13580.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 154 | - |
| 19 | g13580.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 155 | 174 | - |
| 17 | g13580.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 175 | 256 | - |
| 18 | g13580.t16 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 257 | 284 | - |
| 15 | g13580.t16 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 285 | 467 | - |
| 21 | g13580.t16 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 403 | 412 | - |
| 13 | g13580.t16 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 8 | 465 | 3.27E-107 |
| 20 | g13580.t16 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 152 | 174 | - |
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 transcript has been annotated with K17861 (cytochrome P450 family 13)
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.
