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 g4971 g4971.t2 TSS g4971.t2 6214628 6214628
chr_2 g4971 g4971.t2 isoform g4971.t2 6214630 6216554
chr_2 g4971 g4971.t2 exon g4971.t2.exon1 6214630 6214967
chr_2 g4971 g4971.t2 exon g4971.t2.exon2 6215019 6215248
chr_2 g4971 g4971.t2 exon g4971.t2.exon3 6215305 6215580
chr_2 g4971 g4971.t2 exon g4971.t2.exon4 6215639 6215784
chr_2 g4971 g4971.t2 exon g4971.t2.exon5 6215923 6216338
chr_2 g4971 g4971.t2 cds g4971.t2.CDS1 6216055 6216338
chr_2 g4971 g4971.t2 exon g4971.t2.exon6 6216392 6216554
chr_2 g4971 g4971.t2 cds g4971.t2.CDS2 6216392 6216554
chr_2 g4971 g4971.t2 TTS g4971.t2 6216616 6216616

Sequences

>g4971.t2 Gene=g4971 Length=1569
GTTTATTTTGGTTTCTCTTCATTAACGCACACCCAACGATGTCAAAAAAAATTTTAGTCC
AGCAATCTGTTTTTATCTTTCGACGCTTACTTAATACTACGTCTACTTCATTTAACCTTG
ATGTTCAATCGACTGATGTAAAACCTTTTTCACAAGTTCCATCATTGTCTGCATTTGAAA
TCATAGCAAGAAATTTACCAGGTGGTAAATTTTATAACAAATCAATGAAAGATTTGCACT
TAATAATGAATGCTGAGTTCGGCAATATAGTTCGATTTGCTGGTATATTTGGCCGACCAC
CATTATTATTTGTTTATGATGCAAATGACTTCGAAAAGACATTGAGAACTGAAGGTGTAT
GGCCAGAAAGAATTGCATTAGAATCACTTGCTTACTATAGGAAAACAAAGCGACCAGATA
TTTACAATGAATATTCTGGCTTGTTTTCAGCTCAGGGAGAAGAATGGCATAAAATGAGAA
CAATAACTAATCCGATTTTGATGCAACCAAAAATTATTAAACTTTATTGCAAACAAGTTG
ATGAAATAGCAAAGGAATTTGTTGGAATCATGCGGAAATTAAGGGATGAGAAATGTGAAA
TGCCTGCTGATTTTAGCAATTACATAAATTCATGGTCGTTAGAGTCTATTGTTGCTATTG
CTTTAGAAAGACGTTTAAATATACTGAGTGGGTCCTCAAATGATGAAAAAGCTCAAGAGC
TCATCAAAAATATTCGTCTCTTCTTTGAAAAATCTTTCCTTTATGATGTACTTCCTTCAG
TTTGGCGTTACTATGAAACGAAAGGTTTCAAGAATTTCCTGAAAGTATATGATACAATAA
CAAACATTGTGCTTCACTACATAGATATTGCAATAAAGGAAATGGAAAAAAGTGAGTCAT
CTTCTTTGAATCATGAAGATAGCATATTACGGAAACTTTTGAAGATTGACAAAAAAGCGG
CAGTTGTGATGGCGAGTGATATGTTGTTAGACTGCCACGGCAACAATAAACATTCTTTAT
TGTCTTGCAAAAAATCCTGAGAAACAAGACATTCTTCGAAAGGAATTGAACGTCATTTTG
CCATCAAAAGATACAAAAATTACTGCGCAAAATATGCAGAACATGCCTTATTTGCGAGCT
GTGATCAAAGAAACATTGAGAATTATGCCAGTCGTTAGTGGAACAGCTCGAAAAACTGGT
CAAGATGTCAACCTTTCAGGATATAAAGTACCTGCTGGTACACATGTAATTATGGTGCCT
ATATTTGAAATGAATGACGAAAAGCAATATCCACAACCAGAAAAGTATATGCCTGAACGA
TGGCTCCGTGAAAATAACGACCCACAATGTCCTCATGCTAAAAATGCCAATCCATTTACA
TTTCTTCCATTTGGTTTTGGAAGCAGAATGTGCATTGGACGTCGTTTGGCTGAACTGGAA
ATTGAAGTGTTGATTGCAAATGTCATCAGAAATTTTAAGCTTGAATGGCATCATCCTGAT
ATGAAAATTAAAAGTACTTTTGTAAACCTCCCAATTTCAGATTTAAAATTTAAAGTTATC
GATGCATAA

>g4971.t2 Gene=g4971 Length=148
MPYLRAVIKETLRIMPVVSGTARKTGQDVNLSGYKVPAGTHVIMVPIFEMNDEKQYPQPE
KYMPERWLRENNDPQCPHAKNANPFTFLPFGFGSRMCIGRRLAELEIEVLIANVIRNFKL
EWHHPDMKIKSTFVNLPISDLKFKVIDA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g4971.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 148 9.7E-50
2 g4971.t2 PANTHER PTHR24305:SF194 CYTOCHROME P450 12A4, MITOCHONDRIAL-RELATED 1 144 3.5E-51
3 g4971.t2 PANTHER PTHR24305 CYTOCHROME P450 1 144 3.5E-51
10 g4971.t2 PRINTS PR00465 E-class P450 group IV signature 1 14 9.5E-19
6 g4971.t2 PRINTS PR00385 P450 superfamily signature 6 17 4.3E-9
7 g4971.t2 PRINTS PR00465 E-class P450 group IV signature 34 48 9.5E-19
9 g4971.t2 PRINTS PR00465 E-class P450 group IV signature 50 68 9.5E-19
8 g4971.t2 PRINTS PR00465 E-class P450 group IV signature 81 97 9.5E-19
4 g4971.t2 PRINTS PR00385 P450 superfamily signature 88 97 4.3E-9
5 g4971.t2 PRINTS PR00385 P450 superfamily signature 97 108 4.3E-9
11 g4971.t2 PRINTS PR00465 E-class P450 group IV signature 97 115 9.5E-19
1 g4971.t2 Pfam PF00067 Cytochrome P450 1 130 6.9E-46
13 g4971.t2 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 90 99 -
12 g4971.t2 SUPERFAMILY SSF48264 Cytochrome P450 1 145 4.32E-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: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