Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome P450 CYP12A2.

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 g8133 g8133.t4 TTS g8133.t4 28722419 28722419
chr_2 g8133 g8133.t4 isoform g8133.t4 28722513 28723524
chr_2 g8133 g8133.t4 exon g8133.t4.exon1 28722513 28722687
chr_2 g8133 g8133.t4 cds g8133.t4.CDS1 28722513 28722687
chr_2 g8133 g8133.t4 exon g8133.t4.exon2 28722746 28723353
chr_2 g8133 g8133.t4 cds g8133.t4.CDS2 28722746 28723011
chr_2 g8133 g8133.t4 exon g8133.t4.exon3 28723412 28723524
chr_2 g8133 g8133.t4 TSS g8133.t4 NA NA

Sequences

>g8133.t4 Gene=g8133 Length=896
ATTAGACAATTCTTTGTTGAAGTCTATGAATTTGAAGTTAATATGTCGGTTTGGAAATAT
TATGAAACGAAGGCATTTAAAAATCTGATGAACCTTTATGATGAACTTACCAACATTATA
TTACATTATGTTGAGAAAGCCATTGAAGATATTCAAAAGAAAACTATTCGAAATGACAAA
GAAGAAAGTATTTTGGAAAAATTGTTAAAGATAAATAAAAATGCTGCCATAGTCATGACT
GCTGATGCTCTTTTAGCTGGTGTTGATACGGTACAAATAAAAATTTTACACTTAAATTCT
CACCGAAAAATTTTAATTTTCAGACAAGCTCAGCAACAATAGGCATTTTATATTGCTTGG
CAAAAAATCAAGATAAACAAAACAAATTACGGGAAGAATTGAAATCAATATTAAGGAATG
AAAATGATGAATTGACTCCAAAAAATATGCAAAACATGCCTTATTTACGAGCATGCATTA
AAGAAGGATTTCGACTTTATCCACCAACAGTAGGAACTGTGAGAAAAGCTGATCAAGATT
TAGTCTTGTCTGGTTATAAAATTCCGAAAGGAACTGAAGTTGTTATGCCTATAGCTTTAT
TTCAAAAAGATTGCTATACACGTGCAAATGAATTCATTCCAGAACGTTGGTTGAAAGAAA
TTTTAGACACAAATTGTCCTCATGCAAAAGAAGCTTCACCATTTTCTTATCTTCCATTTG
GGTTCGGTTCACGAGTATGTATCGGAAAAAGATTGGCTAATCTTGAAATGGAAGTTCTAA
TAACTAGGCTTATTCGTGATTATAAAATAGAATGGAATTATCCTGAATTGAAATTCAAAG
TTGCTATTGTGAATATACCTGATGGTGCATTAAAGTTTAAAATTACTAAAATATAA

>g8133.t4 Gene=g8133 Length=146
MPYLRACIKEGFRLYPPTVGTVRKADQDLVLSGYKIPKGTEVVMPIALFQKDCYTRANEF
IPERWLKEILDTNCPHAKEASPFSYLPFGFGSRVCIGKRLANLEMEVLITRLIRDYKIEW
NYPELKFKVAIVNIPDGALKFKITKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g8133.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 146 2.7E-47
2 g8133.t4 PANTHER PTHR24305:SF194 CYTOCHROME P450 12A4, MITOCHONDRIAL-RELATED 1 142 2.6E-48
3 g8133.t4 PANTHER PTHR24305 CYTOCHROME P450 1 142 2.6E-48
10 g8133.t4 PRINTS PR00465 E-class P450 group IV signature 1 17 1.2E-11
5 g8133.t4 PRINTS PR00385 P450 superfamily signature 6 17 2.4E-7
8 g8133.t4 PRINTS PR00465 E-class P450 group IV signature 48 66 1.2E-11
9 g8133.t4 PRINTS PR00465 E-class P450 group IV signature 79 95 1.2E-11
4 g8133.t4 PRINTS PR00385 P450 superfamily signature 86 95 2.4E-7
6 g8133.t4 PRINTS PR00385 P450 superfamily signature 95 106 2.4E-7
7 g8133.t4 PRINTS PR00465 E-class P450 group IV signature 95 113 1.2E-11
1 g8133.t4 Pfam PF00067 Cytochrome P450 1 120 1.5E-37
12 g8133.t4 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 88 97 -
11 g8133.t4 SUPERFAMILY SSF48264 Cytochrome P450 1 144 6.42E-40

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.

Raw TPM values