General information for g13580.t1
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.t1 | TSS | g13580.t1 | 31040681 | 31040681 |
| chr_1 | g13580 | g13580.t1 | isoform | g13580.t1 | 31040873 | 31042954 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon1 | 31040873 | 31041072 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS1 | 31040873 | 31041072 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon2 | 31041192 | 31041370 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS2 | 31041192 | 31041370 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon3 | 31041434 | 31041466 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS3 | 31041434 | 31041466 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon4 | 31041615 | 31041781 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS4 | 31041615 | 31041781 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon5 | 31041837 | 31042235 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS5 | 31041837 | 31042235 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon6 | 31042300 | 31042714 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS6 | 31042300 | 31042714 |
| chr_1 | g13580 | g13580.t1 | exon | g13580.t1.exon7 | 31042767 | 31042954 |
| chr_1 | g13580 | g13580.t1 | cds | g13580.t1.CDS7 | 31042767 | 31042954 |
| chr_1 | g13580 | g13580.t1 | TTS | g13580.t1 | 31043048 | 31043048 |
Sequences
>g13580.t1 Gene=g13580 Length=1581
ATGTTTATATGGTTTTTATTAATTGTGGCACTTGTTGCTTTGTATAAATATGGCACACGT
AATTTTGATTATTTCCGAGCTAAAGGTGTGCCTTTTAATAAACCAAGATTCTTTGTTGGA
AGTAGATTAGGAATGGTTTTAAAAACAAGCAATATGATTGAATTTGTTGAAGAAATTTAC
AATGAATTTAGAAATGAAAAAGTATCAGGAATGTTTGAATTTAATCACCCGGCATTTTTC
ATTCGTGACCCTGAACTCATTAAAAAATTGGCAGTTAAAGAATTTGATTCATTTATGGAT
CATCGTCTTGTTTTATCAGAAGATGCAGAACCATTATTCGCCAAAGCTCTTTTTGGTTTG
ACTGGTCAAAAATGGAAAGATATGAGAGCTACATTGTCTCCTGCATTCACTGGCTCGAAG
ATGCGCTTAATGTTCAAATTGATGAATGAAGTGGGATCGAAAATGTCGAAGACTGTTTGT
GATAAAATCAATAAAGGCGCAGACAATAAAGTTGAATTTAAAGAGTTCTCGAGAAAATTC
ACGATTGATATAATAGCAACTTGTGCATTTGGCATTGAAGTTAATTCATTTGAAAATGCA
AATAATGACTTCATGAGAATTGCAACAAAAGCTACAAACTTTAATTCTTCAGGAATGCTT
CTTAAATTGATTGGATTTTTTGGATTTCCATGGTTGATGAGTCGATTAAGAGTAAAATTT
TTAGATAGTGAACTTTACGACTTTTTCGATAATGTCATTACTGAAACAATTAACACAAGA
GAACGAAAAGAAATTACTCGAAATGACATGATTGATTTACTTTTGCAAGCAAAACATGGA
AAGCTTGAATATCAAGAAGAAAAATCATCATCTGATGGATTTGCTACTGTTGAAGAATCA
CAAATTGGAAAACAAAAAGTCAAAACTGTCTGGAGCAACCAAGACTTGATGGCTCAATGT
TTTATCTTCTTCTTTGCTGGTTTCGAAACAGTTTCAAATGTGATGACCTTTATGGCATAT
GAACTCATTCTCAATCCTGATATTCAAAAGAAATTGCAAGATGAAATTGATGCAATGAAT
GCTGAACTCAAAGGAGGTGATTTGACTTATGAAGATGTTCAGAAACTAAAATATATGGAT
ATGGTACTTTGTGAAACTTTGAGAATGTGGCCACCAGCTCCTATCATTGATAGAATGTGT
ACAAAAGATTTTCTCTTGGAATATGACAACAAAAAAGTTCAAATTGAAGTTGGCAGAAAT
TTCTATATTCCTGTCTATTCTTTGCATCATAACGAAAACTACTTTCCAAATCCGAATAGA
TTTGATCCAGAACGTTTCAGTGATGAAAACAAGAAAAACATCAGACAGGATTGTTATTTA
CCTTTTGGAATTGGTCCAAGGAATTGCATCGGAAATCGTTTCGCTTTACTTGAAGTCAAG
ACAATCTTCTATTATCTTCTTTTGAATTTTAATTTTGAAGCAACAAAGGACACACAAATT
CCAATTAAATTGGCAAACAATCAAGCTACTTTCCAATTCGAGAAGGGCTTGCATTGCGCA
TTAGTTCCAAGAACAAAATAA
>g13580.t1 Gene=g13580 Length=526
MFIWFLLIVALVALYKYGTRNFDYFRAKGVPFNKPRFFVGSRLGMVLKTSNMIEFVEEIY
NEFRNEKVSGMFEFNHPAFFIRDPELIKKLAVKEFDSFMDHRLVLSEDAEPLFAKALFGL
TGQKWKDMRATLSPAFTGSKMRLMFKLMNEVGSKMSKTVCDKINKGADNKVEFKEFSRKF
TIDIIATCAFGIEVNSFENANNDFMRIATKATNFNSSGMLLKLIGFFGFPWLMSRLRVKF
LDSELYDFFDNVITETINTRERKEITRNDMIDLLLQAKHGKLEYQEEKSSSDGFATVEES
QIGKQKVKTVWSNQDLMAQCFIFFFAGFETVSNVMTFMAYELILNPDIQKKLQDEIDAMN
AELKGGDLTYEDVQKLKYMDMVLCETLRMWPPAPIIDRMCTKDFLLEYDNKKVQIEVGRN
FYIPVYSLHHNENYFPNPNRFDPERFSDENKKNIRQDCYLPFGIGPRNCIGNRFALLEVK
TIFYYLLLNFNFEATKDTQIPIKLANNQATFQFEKGLHCALVPRTK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g13580.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 13 | 526 | 6.8E-132 |
| 2 | g13580.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 12 | 509 | 8.7E-189 |
| 3 | g13580.t1 | PANTHER | PTHR24292:SF90 | CYTOCHROME P450 317A1-RELATED | 12 | 509 | 8.7E-189 |
| 5 | g13580.t1 | PRINTS | PR00463 | E-class P450 group I signature | 315 | 332 | 9.8E-22 |
| 11 | g13580.t1 | PRINTS | PR00385 | P450 superfamily signature | 326 | 343 | 6.5E-11 |
| 8 | g13580.t1 | PRINTS | PR00463 | E-class P450 group I signature | 335 | 361 | 9.8E-22 |
| 12 | g13580.t1 | PRINTS | PR00385 | P450 superfamily signature | 381 | 392 | 6.5E-11 |
| 7 | g13580.t1 | PRINTS | PR00463 | E-class P450 group I signature | 424 | 448 | 9.8E-22 |
| 4 | g13580.t1 | PRINTS | PR00463 | E-class P450 group I signature | 459 | 469 | 9.8E-22 |
| 9 | g13580.t1 | PRINTS | PR00385 | P450 superfamily signature | 460 | 469 | 6.5E-11 |
| 6 | g13580.t1 | PRINTS | PR00463 | E-class P450 group I signature | 469 | 492 | 9.8E-22 |
| 10 | g13580.t1 | PRINTS | PR00385 | P450 superfamily signature | 469 | 480 | 6.5E-11 |
| 1 | g13580.t1 | Pfam | PF00067 | Cytochrome P450 | 35 | 510 | 1.5E-81 |
| 17 | g13580.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 18 | g13580.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 19 | g13580.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 20 | g13580.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 18 | - |
| 16 | g13580.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 526 | - |
| 21 | g13580.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 462 | 471 | - |
| 13 | g13580.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 31 | 524 | 3.93E-110 |
| 14 | g13580.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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 K07424 (cytochrome P450 family 3 subfamily A)
Pathway
- This transcript belongs to the following 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. There were no conditions that were differentially expressed