Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4d2.

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_2 g8132 g8132.t2 TSS g8132.t2 28720199 28720199
chr_2 g8132 g8132.t2 isoform g8132.t2 28720256 28721300
chr_2 g8132 g8132.t2 exon g8132.t2.exon1 28720256 28720790
chr_2 g8132 g8132.t2 cds g8132.t2.CDS1 28720256 28720790
chr_2 g8132 g8132.t2 exon g8132.t2.exon2 28720849 28720918
chr_2 g8132 g8132.t2 cds g8132.t2.CDS2 28720849 28720918
chr_2 g8132 g8132.t2 exon g8132.t2.exon3 28720997 28721300
chr_2 g8132 g8132.t2 cds g8132.t2.CDS3 28720997 28721300
chr_2 g8132 g8132.t2 TTS g8132.t2 NA NA

Sequences

>g8132.t2 Gene=g8132 Length=909
ATGTTGATTGTAATTTTAACACTTACAATTGTACTTTTTTGGCTTTTAAGGGATGAATTT
AGAAAATTTTATTTAGCATTTTTTATTCCTGGTCCTCCAGGATTACCATTGGCAGGAAAT
GGATTAGATTTAATTAATAAATCACCACAAGAGTTGATTCAAATTATTTCGCGCTATTTA
AAAAATCATGGAAATTTTATTAGAATATGGCTTGGAAATCAACTCTTAATTGCAACTACA
GATCCAAAAGCCGTGCAAGCTATAATGACTGATAGCAATTTATTAACCAAATCGAGAGAA
TACGAATATATGGAAGCATGGCTTGGTACCGGTTTACTCACGTCAACAAATCAAAAGTGG
TTAAGTCGTCGTAAAATTCTTACACCTGCATTTCATTTTAAAATTCTAGATGAATTCATT
GAAGTTTTTGACAAGCAAGGCACAATTTTGATTGAAAAGCTAAAAAAATTTGATGGAAAA
GAATCATTTAATATATTTCCACTTGTTGCATTATGTGCTTTGGATGTCATTTGTGAAACT
GCTATGGGAATTTCACTCAATTCACAATCAGATTCAGAGTCGCAATATGTTAAAAATGTT
AATGAACTTGCCGATATTATACATCGTCGCACATATGATTTTATTGAACGATATGAATTT
TTGTTCAAATTCACCAAAACTTATAAACGACAGCAAAAGTTAGTTGAAGCTCTTCATCAG
TTCACGGAGTCAGTCATCAAATCACGTCGTAAAGAAATGAAGAGTAAACAAAATACTGCA
CAGGAAGACGAAGATTTTGGCATCAAGAAAAAGAAAGCTCTGCTTGATCTGTTACTAGAA
ACAACAGTTGAAGGAAAGCTATTGAGTAATGAAGACATTCGTGAGGAAATCGACACTTTT
ATGTTTGAG

>g8132.t2 Gene=g8132 Length=303
MLIVILTLTIVLFWLLRDEFRKFYLAFFIPGPPGLPLAGNGLDLINKSPQELIQIISRYL
KNHGNFIRIWLGNQLLIATTDPKAVQAIMTDSNLLTKSREYEYMEAWLGTGLLTSTNQKW
LSRRKILTPAFHFKILDEFIEVFDKQGTILIEKLKKFDGKESFNIFPLVALCALDVICET
AMGISLNSQSDSESQYVKNVNELADIIHRRTYDFIERYEFLFKFTKTYKRQQKLVEALHQ
FTESVIKSRRKEMKSKQNTAQEDEDFGIKKKKALLDLLLETTVEGKLLSNEDIREEIDTF
MFE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g8132.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 16 303 2.1E-48
2 g8132.t2 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 5 303 5.1E-88
3 g8132.t2 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 5 303 5.1E-88
1 g8132.t2 Pfam PF00067 Cytochrome P450 30 303 3.4E-43
7 g8132.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
8 g8132.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
9 g8132.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 13 -
10 g8132.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 17 -
6 g8132.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 303 -
4 g8132.t2 SUPERFAMILY SSF48264 Cytochrome P450 29 302 7.73E-46

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