Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t14 TSS g13580.t14 31040681 31040681
chr_1 g13580 g13580.t14 isoform g13580.t14 31040873 31042225
chr_1 g13580 g13580.t14 exon g13580.t14.exon1 31040873 31041072
chr_1 g13580 g13580.t14 exon g13580.t14.exon2 31041192 31041370
chr_1 g13580 g13580.t14 exon g13580.t14.exon3 31041434 31041466
chr_1 g13580 g13580.t14 exon g13580.t14.exon4 31041582 31041781
chr_1 g13580 g13580.t14 cds g13580.t14.CDS1 31041623 31041781
chr_1 g13580 g13580.t14 exon g13580.t14.exon5 31041837 31042225
chr_1 g13580 g13580.t14 cds g13580.t14.CDS2 31041837 31042223
chr_1 g13580 g13580.t14 TTS g13580.t14 31043048 31043048

Sequences

>g13580.t14 Gene=g13580 Length=1001
ATGTTTATATGGTTTTTATTAATTGTGGCACTTGTTGCTTTGTATAAATATGGCACACGT
AATTTTGATTATTTCCGAGCTAAAGGTGTGCCTTTTAATAAACCAAGATTCTTTGTTGGA
AGTAGATTAGGAATGGTTTTAAAAACAAGCAATATGATTGAATTTGTTGAAGAAATTTAC
AATGAATTTAGAAATGAAAAAGTATCAGGAATGTTTGAATTTAATCACCCGGCATTTTTC
ATTCGTGACCCTGAACTCATTAAAAAATTGGCAGTTAAAGAATTTGATTCATTTATGGAT
CATCGTCTTGTTTTATCAGAAGATGCAGAACCATTATTCGCCAAAGCTCTTTTTGGTTTG
ACTGGTCAAAAATGGAAAGATATGAGAGCTACATTGTCTCCTGCATTCACTGACGCTAAT
GACTTTCCTAATTTAAACTAAACAGGCTCGAAGATGCGCTTAATGTTCAAATTGATGAAT
GAAGTGGGATCGAAAATGTCGAAGACTGTTTGTGATAAAATCAATAAAGGCGCAGACAAT
AAAGTTGAATTTAAAGAGTTCTCGAGAAAATTCACGATTGATATAATAGCAACTTGTGCA
TTTGGCATTGAAGTTAATTCATTTGAAAATGCAAATAATGACTTCATGAGAATTGCAACA
AAAGCTACAAACTTTAATTCTTCAGGAATGCTTCTTAAATTGATTGGATTTTTTGGATTT
CCATGGTTGATGAGTCGATTAAGAGTAAAATTTTTAGATAGTGAACTTTACGACTTTTTC
GATAATGTCATTACTGAAACAATTAACACAAGAGAACGAAAAGAAATTACTCGAAATGAC
ATGATTGATTTACTTTTGCAAGCAAAACATGGAAAGCTTGAATATCAAGAAGAAAAATCA
TCATCTGATGGATTTGCTACTGTTGAAGAATCACAAATTGGAAAACAAAAAGTCAAAACT
GTCTGGAGCAACCAAGACTTGATGGCTCAATGTTTTATCTT

>g13580.t14 Gene=g13580 Length=182
MRLMFKLMNEVGSKMSKTVCDKINKGADNKVEFKEFSRKFTIDIIATCAFGIEVNSFENA
NNDFMRIATKATNFNSSGMLLKLIGFFGFPWLMSRLRVKFLDSELYDFFDNVITETINTR
ERKEITRNDMIDLLLQAKHGKLEYQEEKSSSDGFATVEESQIGKQKVKTVWSNQDLMAQC
FI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g13580.t14 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 182 2.5E-22
2 g13580.t14 PANTHER PTHR24292 CYTOCHROME P450 1 182 1.4E-42
3 g13580.t14 PANTHER PTHR24292:SF90 CYTOCHROME P450 317A1-RELATED 1 182 1.4E-42
1 g13580.t14 Pfam PF00067 Cytochrome P450 6 143 7.7E-10
7 g13580.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 73 -
9 g13580.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 74 93 -
8 g13580.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 94 182 -
5 g13580.t14 SUPERFAMILY SSF48264 Cytochrome P450 2 142 1.96E-17
4 g13580.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -

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.

Raw TPM values