Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable cytochrome P450 9f2.

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 g13107 g13107.t36 TTS g13107.t36 27991332 27991332
chr_1 g13107 g13107.t36 isoform g13107.t36 27991917 27993083
chr_1 g13107 g13107.t36 exon g13107.t36.exon1 27991917 27991985
chr_1 g13107 g13107.t36 cds g13107.t36.CDS1 27991917 27991985
chr_1 g13107 g13107.t36 exon g13107.t36.exon2 27992042 27992208
chr_1 g13107 g13107.t36 cds g13107.t36.CDS2 27992042 27992208
chr_1 g13107 g13107.t36 exon g13107.t36.exon3 27992413 27992591
chr_1 g13107 g13107.t36 cds g13107.t36.CDS3 27992413 27992591
chr_1 g13107 g13107.t36 exon g13107.t36.exon4 27992658 27992885
chr_1 g13107 g13107.t36 cds g13107.t36.CDS4 27992658 27992860
chr_1 g13107 g13107.t36 exon g13107.t36.exon5 27993023 27993083
chr_1 g13107 g13107.t36 TSS g13107.t36 27993083 27993083

Sequences

>g13107.t36 Gene=g13107 Length=704
AGATCGAGTGAAGTCGCGAAGGCGAGTGGTTGATAATTTACTTTGCTGAAGTTAATATCA
AGTCATTCTAATTCCAGTTTGTCATAATGATTATTTGGATTTTATTATTGATTGCCGCAG
TCATTTTGCTGTACAAATATGGAACGAGAAATTTCGATTACTTTCAAAAGAAAGGACTGG
CTTTTAATAAGCCTCATTTTCTTGTTGGGTCACGCCTAAGTACAGTTCTTGGTACAAAAA
ATATGATCGAAATGCTCACTGAAATTTATAATGAGCATAGAGATGAAAAAATTTCCGGCA
TGTTTGAATTCAATCGTCCAGCATATTTTATTCGTGACCCAGAGATGATTAAACGACTTT
GTATTAAAGAATTTGATTCATTCAGCGATCATCGACTTATTCTTTCTAAAGAAGCAGAAC
CTCTCTTTGCTTCTGCACTTTTCGGTTTGACGGGTCAAAAATGGAGAGGCAGCAAAATGC
GTCTAATGTTTAAGCTCATAAACGACGTTGGCTCTCAAATGTCGAATACTGTTCTTGAAC
AAATAAATAAAGGAGCTGACAACAAAATTGAGTTTAAAGAATTTGCTCAGAAATTTACAA
TCGATATTATAGCAAGTTGCGCATTTGGATTAGAGATAAATTCATTCAATAATCCCAATA
ATGACTTCCTGAGAATTGCAAGAAAAGCAACAAATTTCGCTACC

>g13107.t36 Gene=g13107 Length=206
MIIWILLLIAAVILLYKYGTRNFDYFQKKGLAFNKPHFLVGSRLSTVLGTKNMIEMLTEI
YNEHRDEKISGMFEFNRPAYFIRDPEMIKRLCIKEFDSFSDHRLILSKEAEPLFASALFG
LTGQKWRGSKMRLMFKLINDVGSQMSNTVLEQINKGADNKIEFKEFAQKFTIDIIASCAF
GLEINSFNNPNNDFLRIARKATNFAT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13107.t36 Gene3D G3DSA:1.10.630.10 Cytochrome p450 14 206 3.7E-31
2 g13107.t36 PANTHER PTHR24292 CYTOCHROME P450 5 204 7.2E-44
1 g13107.t36 Pfam PF00067 Cytochrome P450 35 197 5.2E-11
7 g13107.t36 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
8 g13107.t36 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
9 g13107.t36 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
10 g13107.t36 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
6 g13107.t36 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 206 -
4 g13107.t36 SUPERFAMILY SSF48264 Cytochrome P450 35 204 2.29E-19
3 g13107.t36 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 19 -

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