Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome P450 9b2.

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_4 g15556 g15556.t9 isoform g15556.t9 5844898 5847211
chr_4 g15556 g15556.t9 exon g15556.t9.exon1 5844898 5845413
chr_4 g15556 g15556.t9 cds g15556.t9.CDS1 5845132 5845413
chr_4 g15556 g15556.t9 exon g15556.t9.exon2 5845473 5845782
chr_4 g15556 g15556.t9 cds g15556.t9.CDS2 5845473 5845646
chr_4 g15556 g15556.t9 exon g15556.t9.exon3 5847101 5847211
chr_4 g15556 g15556.t9 TTS g15556.t9 5847255 5847255
chr_4 g15556 g15556.t9 TSS g15556.t9 NA NA

Sequences

>g15556.t9 Gene=g15556 Length=937
TTGTCGAATTTTTCAGCAAATCCTGAATATGAAGTGAAATCGAAAAATTCAATTATTTGG
ACTGATGATCATTTCATTGCACAAGGTCATCTATTTTTCTCTGCTGGTCTCGCAACTTCA
TCAGTTGTTCTTGAAACAGTTGCTTACTATCTTGCAGTGAATAAAAATTATCAAAATGAA
ATAATCAAAGAAGTCGATGCAGTTGAAAATCCAACTTATGAAGCAATTCATAAAATGAAA
TTTCTTGACATGTTTATCAGTGAAGTTTTGAGACTTTGGGCTTCACCATTTTTGAATAGA
GAATGTAATAAGGATTATAAAATGGATTTTGGTGATGGAATTGTTATAAATGTAAAAAAT
GGCGATTTTGTTCAATTTCCTGTTTGGTCAATTCATCATGATGAAAAATATTTTCCAAAT
CCAGAAGTTTTTGATCCTTATCGATTTAGTGATGAAAGAAAAGGAGAAATTTTGAATTAT
TATATGCCATTCGGTATTGGACCAAGAATTTGTATTGCTTCACGTTTTGCATTGATGGAA
GTAAAAGTGCTAATTTTTAAAATTTTATCAAAGTTTACTTTTGAAGCATGTGAAAAAACA
CCAAAGAAATTGAAAGCAAAACCAAGTTTAACAGAATTTCAATTTACCGAAGATATTATT
GTCGAATTGAAACCAAGGGATGGAAAATAATTTCTTTAATATAAAAGAAGTTTTTCAAAT
TTTATTATCTGATATTATAAATTATTTTTGAAAACCAATCAATTTCAAAAATTAATTTTT
TCTTTCATGTTTTTATTTTTCAAGATCGAGATCTTGAGAACCCTTATACATTATTGTCAT
CAAAAAACTTAATAAGCAGTCATTTGTCTAAAACATTCAAAAAAAATTATTGCATTATCA
AATCTGTTGTAAAATTATAAATAAATGTAAAATATAA

>g15556.t9 Gene=g15556 Length=151
MKFLDMFISEVLRLWASPFLNRECNKDYKMDFGDGIVINVKNGDFVQFPVWSIHHDEKYF
PNPEVFDPYRFSDERKGEILNYYMPFGIGPRICIASRFALMEVKVLIFKILSKFTFEACE
KTPKKLKAKPSLTEFQFTEDIIVELKPRDGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g15556.t9 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 151 6.6E-43
2 g15556.t9 PANTHER PTHR24292:SF91 CYP9F3-RELATED 1 146 2.5E-47
3 g15556.t9 PANTHER PTHR24292 CYTOCHROME P450 1 146 2.5E-47
10 g15556.t9 PRINTS PR00465 E-class P450 group IV signature 1 14 2.3E-16
4 g15556.t9 PRINTS PR00385 P450 superfamily signature 6 17 5.8E-5
7 g15556.t9 PRINTS PR00465 E-class P450 group IV signature 54 72 2.3E-16
9 g15556.t9 PRINTS PR00465 E-class P450 group IV signature 77 93 2.3E-16
6 g15556.t9 PRINTS PR00385 P450 superfamily signature 84 93 5.8E-5
5 g15556.t9 PRINTS PR00385 P450 superfamily signature 93 104 5.8E-5
8 g15556.t9 PRINTS PR00465 E-class P450 group IV signature 93 111 2.3E-16
1 g15556.t9 Pfam PF00067 Cytochrome P450 1 130 1.5E-36
12 g15556.t9 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 86 95 -
11 g15556.t9 SUPERFAMILY SSF48264 Cytochrome P450 1 148 4.98E-39

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. There were no conditions that were differentially expressed