Gene loci information

Transcript annotation

  • This transcript has been annotated as 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_3 g1696 g1696.t1 TTS g1696.t1 12590765 12590765
chr_3 g1696 g1696.t1 isoform g1696.t1 12590821 12591576
chr_3 g1696 g1696.t1 exon g1696.t1.exon1 12590821 12590995
chr_3 g1696 g1696.t1 cds g1696.t1.CDS1 12590821 12590995
chr_3 g1696 g1696.t1 exon g1696.t1.exon2 12591045 12591051
chr_3 g1696 g1696.t1 cds g1696.t1.CDS2 12591045 12591051
chr_3 g1696 g1696.t1 exon g1696.t1.exon3 12591125 12591228
chr_3 g1696 g1696.t1 cds g1696.t1.CDS3 12591125 12591228
chr_3 g1696 g1696.t1 exon g1696.t1.exon4 12591290 12591576
chr_3 g1696 g1696.t1 cds g1696.t1.CDS4 12591290 12591576
chr_3 g1696 g1696.t1 TSS g1696.t1 12592494 12592494

Sequences

>g1696.t1 Gene=g1696 Length=573
ATGGGCTTCATGGGATATGAATTAGCATGCAATCCTGATGTTCAACAAAAACTTTATGAA
GAAATTTTAGCTATGGAAGAAGATTTAAATGGCAAAACATTAACTTATGAGAAGTTACAA
AGCATGAAATATATGGATCAAGTGGTGTGTGAAGTCTTAAGAAAATGGCCGCCAGCTCCT
GTTACAGATCGCACTTGCGTGAAAGATTATGAACTAGAAGTTGATGGAGTGAAATTTACT
ATTGAGAAAGGAGATAATTGTATGATTCCTATTTGGGGAATGCATCATGATATAGCTTAC
TTTCCAAATCCTGAAAAATTCGATCCCGAGCGTTTTAGTGATGAAAATAAAGATAAGATT
GAAGAGTACACATATTTGCCATTCGGTGTTGGTCCAAGAAATTGCATTGGAAGTCGTTTT
GCATTGATGGAAGTCAAATCAATTTTCTATTACATGCTTTTGAATTTTAAAATCATGAAA
ACTGAGAAAACACCAATTCCACTTGAATTTGTAAAAGTGCCTGTAGGACTTAAAGTAGAA
AAAGGAATCTGGGTGGCTCTTGAACCACGATAA

>g1696.t1 Gene=g1696 Length=190
MGFMGYELACNPDVQQKLYEEILAMEEDLNGKTLTYEKLQSMKYMDQVVCEVLRKWPPAP
VTDRTCVKDYELEVDGVKFTIEKGDNCMIPIWGMHHDIAYFPNPEKFDPERFSDENKDKI
EEYTYLPFGVGPRNCIGSRFALMEVKSIFYYMLLNFKIMKTEKTPIPLEFVKVPVGLKVE
KGIWVALEPR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1696.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 190 8.2E-67
2 g1696.t1 PANTHER PTHR24292 CYTOCHROME P450 2 171 5.8E-87
3 g1696.t1 PANTHER PTHR24292:SF90 CYTOCHROME P450 317A1-RELATED 2 171 5.8E-87
7 g1696.t1 PRINTS PR00463 E-class P450 group I signature 1 22 6.7E-17
9 g1696.t1 PRINTS PR00385 P450 superfamily signature 10 23 9.3E-11
11 g1696.t1 PRINTS PR00385 P450 superfamily signature 47 58 9.3E-11
5 g1696.t1 PRINTS PR00463 E-class P450 group I signature 90 114 6.7E-17
4 g1696.t1 PRINTS PR00463 E-class P450 group I signature 125 135 6.7E-17
10 g1696.t1 PRINTS PR00385 P450 superfamily signature 126 135 9.3E-11
6 g1696.t1 PRINTS PR00463 E-class P450 group I signature 135 158 6.7E-17
8 g1696.t1 PRINTS PR00385 P450 superfamily signature 135 146 9.3E-11
1 g1696.t1 Pfam PF00067 Cytochrome P450 6 171 2.2E-55
13 g1696.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 128 137 -
12 g1696.t1 SUPERFAMILY SSF48264 Cytochrome P450 2 190 2.36E-62

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