Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 12a5, mitochondrial.

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 g4724 g4724.t2 isoform g4724.t2 4391339 4393465
chr_2 g4724 g4724.t2 TSS g4724.t2 4391339 4391339
chr_2 g4724 g4724.t2 exon g4724.t2.exon1 4391339 4391610
chr_2 g4724 g4724.t2 cds g4724.t2.CDS1 4391386 4391610
chr_2 g4724 g4724.t2 exon g4724.t2.exon2 4391680 4391795
chr_2 g4724 g4724.t2 cds g4724.t2.CDS2 4391680 4391795
chr_2 g4724 g4724.t2 exon g4724.t2.exon3 4391851 4392007
chr_2 g4724 g4724.t2 cds g4724.t2.CDS3 4391851 4392007
chr_2 g4724 g4724.t2 exon g4724.t2.exon4 4392064 4393465
chr_2 g4724 g4724.t2 cds g4724.t2.CDS4 4392064 4392636
chr_2 g4724 g4724.t2 TTS g4724.t2 NA NA

Sequences

>g4724.t2 Gene=g4724 Length=1947
GAAATGGTGAACGTTGGTACAAAATTAGAACTATAATAAACCAAGTCATGTTGCCACCTA
AAAATGTTCAACAATTTGTTCAACCAATTGATGAAATTTCAAACGAATTTATTGATTTTA
TAAGAAAAAGAAGTAATGACACAAATGATGAAATTCTTGGTAAAGATATTAATTTATGGA
CTTTGGAAAGCATGGCAAGTGTGACACTAAATAAACGATTGAATTTATTTAATGAAAAAT
TTATTGATCCAAGAGCTAGAGAATTGATTCAGTGTGTAAGAAAATTCTTTATAATGACAG
TTGATTTTGAGCTTAATCCATCGATTTGGAAATTTTATCATACAAAAGCTTTTAAGGAAT
ATATGGAAGTTAATGATAAATTGCTCAATACTGTTTTGAGTTTTATTGAAGAAACTATGG
AAAATATGAAGAACACAACTGATAATAATCAAGAAGTTGAAGGAATTTTACAAAAATTGT
TAAAAATTGACAAAAGAGTTGCAGTAATTATGGCAAGTGATTCTTTATTTGCTGGAATTG
ATACTACTGGTTCCGGAACAATTGGAGTTCTCTATTGTTTAGCAAAAAATCCTGAAAAAC
AAGAAAAACTTCGTCAAGAAATTTTGAAAATTTTTCCCAATAAAGATGAACCAATTGATG
CTAGAAAAATGGCTAATATGCCCTACATAAGAAGTTGCATCAAAGAAGCACTTCGACTAT
TTCCACCAGTTTCAGGAACCTCTCGCACAATTGCAAAAGATTTGGTGCTTTCAGGTTATC
AAATACCAGCTGGCACAGTTGTCGTCACTTGGCCTCAATTATTTTATCGACAAGAAAAAT
TCTTTCCAAAAAGCAATGAATACATACCAGAACGTTGGTTGAAAGAATCTGTAAAAGATT
GTCCACATTTGCAAGTTGAGAAATTTCATTTTCTACCATTTGGTCATGGAGTTCGTTCAT
GTCCTGGAAAGCGAATTGCTAACATGGAAATGGAAGTTTTGCTGATTAATTTATTGAGAA
AATTCAAAATAGAATGGCATCAAGATGATATGAAAGTTAACAGTGTTTTGGTCAATATTC
CTTATGGAGATATAAGATTTAAATTAGTTGAGTTATAAAAAATTATTTTAATAGAATTTT
TGTTATTTATTAAAATCTTGGGCGGTGCAATGAATATTTTTTGTCCGTTATTGGTCCCTA
TTTAAAAAATACTATTACGTTTTATTTTATTTAAATCTTAAAAATTCTCAATAAATTTAT
TTTTGTTCATTTGATTTGCTTTTATTAAGCTCCATTATATTTTTCTTATTCAAGCTAAAG
AATATTTAAATGAATTTAGCAAAATTTTGTGCTGGAGTGCGTTCGAAAATTTTAAATTTT
TTTGAATTTTTCAAATTTTTCTTAATACAAAGCAACTGTCATTTTTCCTTGTTGCACCAT
CCAGAATTAAAATAATTTTAATTTTAAAGATTAATTTCAATTATTCATATATATTTTCAT
ATTTAAAATTTTTGAAAATTCTAAAACAGGTTTTTTATAAATTAAATAACTTTTTTGTAA
AGTTTCAAAAATTAAAATTTTTTGGCTAATTTTTAATTAAATTTAGCCAACGATGTTATT
GTTTATATTTTGTTCATGCGTCTACTTGTCTTCTCAGTTAATTCTTATGAGTTAATGTTT
TTTATTATATTTTTTTACATTTTTGTATTGATTAATTTTCTAATTATGAAACCAGTGTAA
ATTTAATAGAATTTTCAATTTAAAATTATTTGTTTTGAAATGAAATAAAAATTTATTTGT
AAATTTCTACATTTTTTAATTTTTCCTCTAATTCAGCAATAGTTAAAGAATTTATTTCGT
TTTCACTTAAATTTATTTTAAATTTTTCTTCAACAAATTCCTGAAGATTTTCAAATTTGC
TTTCACTTTTAATTGACAAATTTTCTT

>g4724.t2 Gene=g4724 Length=356
MLPPKNVQQFVQPIDEISNEFIDFIRKRSNDTNDEILGKDINLWTLESMASVTLNKRLNL
FNEKFIDPRARELIQCVRKFFIMTVDFELNPSIWKFYHTKAFKEYMEVNDKLLNTVLSFI
EETMENMKNTTDNNQEVEGILQKLLKIDKRVAVIMASDSLFAGIDTTGSGTIGVLYCLAK
NPEKQEKLRQEILKIFPNKDEPIDARKMANMPYIRSCIKEALRLFPPVSGTSRTIAKDLV
LSGYQIPAGTVVVTWPQLFYRQEKFFPKSNEYIPERWLKESVKDCPHLQVEKFHFLPFGH
GVRSCPGKRIANMEMEVLLINLLRKFKIEWHQDDMKVNSVLVNIPYGDIRFKLVEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4724.t2 Coils Coil Coil 120 140 -
15 g4724.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 355 1.7E-93
2 g4724.t2 PANTHER PTHR24291:SF155 CYTOCHROME P450 301B1 2 345 1.1E-93
3 g4724.t2 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 2 345 1.1E-93
4 g4724.t2 PRINTS PR00385 P450 superfamily signature 162 179 1.2E-9
9 g4724.t2 PRINTS PR00465 E-class P450 group IV signature 211 227 1.6E-17
7 g4724.t2 PRINTS PR00385 P450 superfamily signature 216 227 1.2E-9
8 g4724.t2 PRINTS PR00465 E-class P450 group IV signature 244 258 1.6E-17
10 g4724.t2 PRINTS PR00465 E-class P450 group IV signature 260 278 1.6E-17
12 g4724.t2 PRINTS PR00465 E-class P450 group IV signature 289 305 1.6E-17
6 g4724.t2 PRINTS PR00385 P450 superfamily signature 296 305 1.2E-9
5 g4724.t2 PRINTS PR00385 P450 superfamily signature 305 316 1.2E-9
11 g4724.t2 PRINTS PR00465 E-class P450 group IV signature 305 323 1.6E-17
1 g4724.t2 Pfam PF00067 Cytochrome P450 8 336 4.6E-68
14 g4724.t2 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 298 307 -
13 g4724.t2 SUPERFAMILY SSF48264 Cytochrome P450 2 353 6.81E-76

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