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.t1 TSS g4724.t1 4390573 4390573
chr_2 g4724 g4724.t1 isoform g4724.t1 4390671 4392636
chr_2 g4724 g4724.t1 exon g4724.t1.exon1 4390671 4390873
chr_2 g4724 g4724.t1 cds g4724.t1.CDS1 4390671 4390873
chr_2 g4724 g4724.t1 exon g4724.t1.exon2 4391073 4391285
chr_2 g4724 g4724.t1 cds g4724.t1.CDS2 4391073 4391285
chr_2 g4724 g4724.t1 exon g4724.t1.exon3 4391340 4391610
chr_2 g4724 g4724.t1 cds g4724.t1.CDS3 4391340 4391610
chr_2 g4724 g4724.t1 exon g4724.t1.exon4 4391680 4391795
chr_2 g4724 g4724.t1 cds g4724.t1.CDS4 4391680 4391795
chr_2 g4724 g4724.t1 exon g4724.t1.exon5 4391851 4392007
chr_2 g4724 g4724.t1 cds g4724.t1.CDS5 4391851 4392007
chr_2 g4724 g4724.t1 exon g4724.t1.exon6 4392064 4392636
chr_2 g4724 g4724.t1 cds g4724.t1.CDS6 4392064 4392636
chr_2 g4724 g4724.t1 TTS g4724.t1 4393318 4393318

Sequences

>g4724.t1 Gene=g4724 Length=1533
ATGTTGAGAAAACTAAATTTTAAAGTTTTAATTAATAATGCAAAGTTTTCAACTATCGCA
GTTCCTCGTGTAAATGACCAAAATTTAGATTTAAAAGCTGCAAAGCCATTTCATGAAATT
CCTAAAATAAATCGATTAAAATTGATTATTAATTACTTGCCAGGTGGAAAGTATTATAAG
AAAGGATTAAATGAATTGCATAGATCATTGAGTAAAGAATATGGAAATATTGTAATTATG
CCAGCAATGTTGGGAAAACCTGAAATTGTTTTCTCCTACAGTGACCATGATAATGAAACA
ATTTTACTCAATGAAGGAAATTTCCCAAATAGATACAGCTTTGAAATTTTAAAATATTTT
AGAGAAACTTTACGGCCTGATGTTTATGGTGGTGAATATGGAAGTGTTGCTTCTGAAAAT
GGTGAACGTTGGTACAAAATTAGAACTATAATAAACCAAGTCATGTTGCCACCTAAAAAT
GTTCAACAATTTGTTCAACCAATTGATGAAATTTCAAACGAATTTATTGATTTTATAAGA
AAAAGAAGTAATGACACAAATGATGAAATTCTTGGTAAAGATATTAATTTATGGACTTTG
GAAAGCATGGCAAGTGTGACACTAAATAAACGATTGAATTTATTTAATGAAAAATTTATT
GATCCAAGAGCTAGAGAATTGATTCAGTGTGTAAGAAAATTCTTTATAATGACAGTTGAT
TTTGAGCTTAATCCATCGATTTGGAAATTTTATCATACAAAAGCTTTTAAGGAATATATG
GAAGTTAATGATAAATTGCTCAATACTGTTTTGAGTTTTATTGAAGAAACTATGGAAAAT
ATGAAGAACACAACTGATAATAATCAAGAAGTTGAAGGAATTTTACAAAAATTGTTAAAA
ATTGACAAAAGAGTTGCAGTAATTATGGCAAGTGATTCTTTATTTGCTGGAATTGATACT
ACTGGTTCCGGAACAATTGGAGTTCTCTATTGTTTAGCAAAAAATCCTGAAAAACAAGAA
AAACTTCGTCAAGAAATTTTGAAAATTTTTCCCAATAAAGATGAACCAATTGATGCTAGA
AAAATGGCTAATATGCCCTACATAAGAAGTTGCATCAAAGAAGCACTTCGACTATTTCCA
CCAGTTTCAGGAACCTCTCGCACAATTGCAAAAGATTTGGTGCTTTCAGGTTATCAAATA
CCAGCTGGCACAGTTGTCGTCACTTGGCCTCAATTATTTTATCGACAAGAAAAATTCTTT
CCAAAAAGCAATGAATACATACCAGAACGTTGGTTGAAAGAATCTGTAAAAGATTGTCCA
CATTTGCAAGTTGAGAAATTTCATTTTCTACCATTTGGTCATGGAGTTCGTTCATGTCCT
GGAAAGCGAATTGCTAACATGGAAATGGAAGTTTTGCTGATTAATTTATTGAGAAAATTC
AAAATAGAATGGCATCAAGATGATATGAAAGTTAACAGTGTTTTGGTCAATATTCCTTAT
GGAGATATAAGATTTAAATTAGTTGAGTTATAA

>g4724.t1 Gene=g4724 Length=510
MLRKLNFKVLINNAKFSTIAVPRVNDQNLDLKAAKPFHEIPKINRLKLIINYLPGGKYYK
KGLNELHRSLSKEYGNIVIMPAMLGKPEIVFSYSDHDNETILLNEGNFPNRYSFEILKYF
RETLRPDVYGGEYGSVASENGERWYKIRTIINQVMLPPKNVQQFVQPIDEISNEFIDFIR
KRSNDTNDEILGKDINLWTLESMASVTLNKRLNLFNEKFIDPRARELIQCVRKFFIMTVD
FELNPSIWKFYHTKAFKEYMEVNDKLLNTVLSFIEETMENMKNTTDNNQEVEGILQKLLK
IDKRVAVIMASDSLFAGIDTTGSGTIGVLYCLAKNPEKQEKLRQEILKIFPNKDEPIDAR
KMANMPYIRSCIKEALRLFPPVSGTSRTIAKDLVLSGYQIPAGTVVVTWPQLFYRQEKFF
PKSNEYIPERWLKESVKDCPHLQVEKFHFLPFGHGVRSCPGKRIANMEMEVLLINLLRKF
KIEWHQDDMKVNSVLVNIPYGDIRFKLVEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4724.t1 Coils Coil Coil 274 294 -
15 g4724.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 29 509 1.6E-114
2 g4724.t1 PANTHER PTHR24291:SF155 CYTOCHROME P450 301B1 33 498 6.9E-107
3 g4724.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 33 498 6.9E-107
5 g4724.t1 PRINTS PR00385 P450 superfamily signature 316 333 4.1E-9
12 g4724.t1 PRINTS PR00465 E-class P450 group IV signature 365 381 7.5E-17
6 g4724.t1 PRINTS PR00385 P450 superfamily signature 370 381 4.1E-9
11 g4724.t1 PRINTS PR00465 E-class P450 group IV signature 398 412 7.5E-17
9 g4724.t1 PRINTS PR00465 E-class P450 group IV signature 414 432 7.5E-17
10 g4724.t1 PRINTS PR00465 E-class P450 group IV signature 443 459 7.5E-17
4 g4724.t1 PRINTS PR00385 P450 superfamily signature 450 459 4.1E-9
7 g4724.t1 PRINTS PR00385 P450 superfamily signature 459 470 4.1E-9
8 g4724.t1 PRINTS PR00465 E-class P450 group IV signature 459 477 7.5E-17
1 g4724.t1 Pfam PF00067 Cytochrome P450 49 490 5.4E-77
14 g4724.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 452 461 -
13 g4724.t1 SUPERFAMILY SSF48264 Cytochrome P450 41 507 7.07E-87

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

Pathway

  • This transcript belongs to the following pathways

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