Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 9e2.

Parent gene

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.t15 TSS g13580.t15 31040681 31040681
chr_1 g13580 g13580.t15 isoform g13580.t15 31040873 31042711
chr_1 g13580 g13580.t15 exon g13580.t15.exon1 31040873 31041072
chr_1 g13580 g13580.t15 cds g13580.t15.CDS1 31040873 31041072
chr_1 g13580 g13580.t15 exon g13580.t15.exon2 31041192 31041370
chr_1 g13580 g13580.t15 cds g13580.t15.CDS2 31041192 31041370
chr_1 g13580 g13580.t15 exon g13580.t15.exon3 31041434 31041466
chr_1 g13580 g13580.t15 cds g13580.t15.CDS3 31041434 31041466
chr_1 g13580 g13580.t15 exon g13580.t15.exon4 31041615 31041781
chr_1 g13580 g13580.t15 cds g13580.t15.CDS4 31041615 31041781
chr_1 g13580 g13580.t15 exon g13580.t15.exon5 31041837 31042235
chr_1 g13580 g13580.t15 cds g13580.t15.CDS5 31041837 31042235
chr_1 g13580 g13580.t15 exon g13580.t15.exon6 31042300 31042711
chr_1 g13580 g13580.t15 cds g13580.t15.CDS6 31042300 31042710
chr_1 g13580 g13580.t15 TTS g13580.t15 31043048 31043048

Sequences

>g13580.t15 Gene=g13580 Length=1390
ATGTTTATATGGTTTTTATTAATTGTGGCACTTGTTGCTTTGTATAAATATGGCACACGT
AATTTTGATTATTTCCGAGCTAAAGGTGTGCCTTTTAATAAACCAAGATTCTTTGTTGGA
AGTAGATTAGGAATGGTTTTAAAAACAAGCAATATGATTGAATTTGTTGAAGAAATTTAC
AATGAATTTAGAAATGAAAAAGTATCAGGAATGTTTGAATTTAATCACCCGGCATTTTTC
ATTCGTGACCCTGAACTCATTAAAAAATTGGCAGTTAAAGAATTTGATTCATTTATGGAT
CATCGTCTTGTTTTATCAGAAGATGCAGAACCATTATTCGCCAAAGCTCTTTTTGGTTTG
ACTGGTCAAAAATGGAAAGATATGAGAGCTACATTGTCTCCTGCATTCACTGGCTCGAAG
ATGCGCTTAATGTTCAAATTGATGAATGAAGTGGGATCGAAAATGTCGAAGACTGTTTGT
GATAAAATCAATAAAGGCGCAGACAATAAAGTTGAATTTAAAGAGTTCTCGAGAAAATTC
ACGATTGATATAATAGCAACTTGTGCATTTGGCATTGAAGTTAATTCATTTGAAAATGCA
AATAATGACTTCATGAGAATTGCAACAAAAGCTACAAACTTTAATTCTTCAGGAATGCTT
CTTAAATTGATTGGATTTTTTGGATTTCCATGGTTGATGAGTCGATTAAGAGTAAAATTT
TTAGATAGTGAACTTTACGACTTTTTCGATAATGTCATTACTGAAACAATTAACACAAGA
GAACGAAAAGAAATTACTCGAAATGACATGATTGATTTACTTTTGCAAGCAAAACATGGA
AAGCTTGAATATCAAGAAGAAAAATCATCATCTGATGGATTTGCTACTGTTGAAGAATCA
CAAATTGGAAAACAAAAAGTCAAAACTGTCTGGAGCAACCAAGACTTGATGGCTCAATGT
TTTATCTTCTTCTTTGCTGGTTTCGAAACAGTTTCAAATGTGATGACCTTTATGGCATAT
GAACTCATTCTCAATCCTGATATTCAAAAGAAATTGCAAGATGAAATTGATGCAATGAAT
GCTGAACTCAAAGGAGGTGATTTGACTTATGAAGATGTTCAGAAACTAAAATATATGGAT
ATGGTACTTTGTGAAACTTTGAGAATGTGGCCACCAGCTCCTATCATTGATAGAATGTGT
ACAAAAGATTTTCTCTTGGAATATGACAACAAAAAAGTTCAAATTGAAGTTGGCAGAAAT
TTCTATATTCCTGTCTATTCTTTGCATCATAACGAAAACTACTTTCCAAATCCGAATAGA
TTTGATCCAGAACGTTTCAGTGATGAAAACAAGAAAAACATCAGACAGGATTGTTATTTA
CCTTTTGGAA

>g13580.t15 Gene=g13580 Length=463
MFIWFLLIVALVALYKYGTRNFDYFRAKGVPFNKPRFFVGSRLGMVLKTSNMIEFVEEIY
NEFRNEKVSGMFEFNHPAFFIRDPELIKKLAVKEFDSFMDHRLVLSEDAEPLFAKALFGL
TGQKWKDMRATLSPAFTGSKMRLMFKLMNEVGSKMSKTVCDKINKGADNKVEFKEFSRKF
TIDIIATCAFGIEVNSFENANNDFMRIATKATNFNSSGMLLKLIGFFGFPWLMSRLRVKF
LDSELYDFFDNVITETINTRERKEITRNDMIDLLLQAKHGKLEYQEEKSSSDGFATVEES
QIGKQKVKTVWSNQDLMAQCFIFFFAGFETVSNVMTFMAYELILNPDIQKKLQDEIDAMN
AELKGGDLTYEDVQKLKYMDMVLCETLRMWPPAPIIDRMCTKDFLLEYDNKKVQIEVGRN
FYIPVYSLHHNENYFPNPNRFDPERFSDENKKNIRQDCYLPFG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g13580.t15 Gene3D G3DSA:1.10.630.10 Cytochrome p450 13 463 2.8E-110
2 g13580.t15 PANTHER PTHR24292 CYTOCHROME P450 12 463 7.9E-166
3 g13580.t15 PANTHER PTHR24292:SF90 CYTOCHROME P450 317A1-RELATED 12 463 7.9E-166
6 g13580.t15 PRINTS PR00464 Group II E-class P450 signature 122 142 5.8E-14
5 g13580.t15 PRINTS PR00464 Group II E-class P450 signature 179 197 5.8E-14
4 g13580.t15 PRINTS PR00464 Group II E-class P450 signature 418 433 5.8E-14
1 g13580.t15 Pfam PF00067 Cytochrome P450 35 463 3.8E-65
12 g13580.t15 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
13 g13580.t15 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
14 g13580.t15 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
16 g13580.t15 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 18 -
11 g13580.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 320 -
15 g13580.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 321 343 -
10 g13580.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 344 463 -
7 g13580.t15 SUPERFAMILY SSF48264 Cytochrome P450 31 463 3.67E-90
8 g13580.t15 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:0004497 monooxygenase activity 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.

Raw TPM values