Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable cytochrome P450 12a4, 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 g4970 g4970.t12 TSS g4970.t12 6210086 6210086
chr_2 g4970 g4970.t12 isoform g4970.t12 6211058 6212287
chr_2 g4970 g4970.t12 exon g4970.t12.exon1 6211058 6211319
chr_2 g4970 g4970.t12 exon g4970.t12.exon2 6211379 6211539
chr_2 g4970 g4970.t12 exon g4970.t12.exon3 6211656 6212071
chr_2 g4970 g4970.t12 cds g4970.t12.CDS1 6211779 6212071
chr_2 g4970 g4970.t12 exon g4970.t12.exon4 6212125 6212287
chr_2 g4970 g4970.t12 cds g4970.t12.CDS2 6212125 6212287
chr_2 g4970 g4970.t12 TTS g4970.t12 6212308 6212308

Sequences

>g4970.t12 Gene=g4970 Length=1002
GAGATGAGAAATGTGAAATGCCTGCTGATTTTAGCAATTACATAAATTCATGGTCGTTAG
AGTCAGTTGTTGCTGTTGCTCTAGAAAGACGTTTAAATATATTGAGTGGGTCTTCTAATG
ATGAAAAAGCTCAAGAGCTCATCAAAAATATTAGAATATTTTTTGAAAAATCTTTTGAAT
TTGATGGACTTCCTTCAGTTTGGCGTTACTATGAAACAAAAAGTTTCAAAGATTTCCTAA
AAGTTTATGATACGATAACTAATATTGTGCTGTATTTTATTGAAGAAGCAGTAGCAAGAA
TAGAATCAAATCCTTCTTTATCATCTAACGAAGATGGTATACTGAGAAAACTTTTAAAAA
TTGATAAAAAAGCTGCTGTTGTTATGGCAAGCGACATGCTATTAGGTAAATTCATGTTAA
ATTACAGCAACAGCAGCTATAAACACGCTTTACTGCCTCGCAAAAAATCCTGACAAACAG
GAAATTCTTCGAAAGGAATTGATAAACATTTTGCAAACGAAGGAAACACAATTGACTGCC
GAAAATATGAAAAATTTACCATATTTAAGAGGTGTAATCAAAGAAACATTGAGAATTATG
CCAGTCATTAGTGGGACAGCTAGAAAGGTATCAAATGATGTCAGTATATCGGGATATAAA
GTACCTGCTGGTACACATGTGATCATGGTGCCTATATTTGAAACTACAAATGAAAAGCAA
TATCCACAGCCTGAAAAGTTTATGCCTGAACGATGGCTCCGTGAAAATAACGACCCACAA
TGTCCTCATGCTAAAAATGCCAATCCATTTACATTTCTTCCATTTGGTTTTGGAAGCAGA
ATGTGCATTGGACGTCGTTTGGCTGAACTGGAAATTGAAGTGTTGATTGCAAATGTCATC
AGAAATTTTAAGCTTGAATGGCATCATCCTGATATGAAAATTAAAAGTACTTTTGTAAAC
CTCCCAATTTCAGATTTAAAATTTAAAGCTATTGATTTATGA

>g4970.t12 Gene=g4970 Length=151
MKNLPYLRGVIKETLRIMPVISGTARKVSNDVSISGYKVPAGTHVIMVPIFETTNEKQYP
QPEKFMPERWLRENNDPQCPHAKNANPFTFLPFGFGSRMCIGRRLAELEIEVLIANVIRN
FKLEWHHPDMKIKSTFVNLPISDLKFKAIDL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g4970.t12 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 149 2.5E-49
2 g4970.t12 PANTHER PTHR24305:SF194 CYTOCHROME P450 12A4, MITOCHONDRIAL-RELATED 2 147 1.9E-51
3 g4970.t12 PANTHER PTHR24305 CYTOCHROME P450 2 147 1.9E-51
11 g4970.t12 PRINTS PR00465 E-class P450 group IV signature 4 20 3.4E-18
6 g4970.t12 PRINTS PR00385 P450 superfamily signature 9 20 3.1E-8
7 g4970.t12 PRINTS PR00465 E-class P450 group IV signature 37 51 3.4E-18
10 g4970.t12 PRINTS PR00465 E-class P450 group IV signature 53 71 3.4E-18
9 g4970.t12 PRINTS PR00465 E-class P450 group IV signature 84 100 3.4E-18
5 g4970.t12 PRINTS PR00385 P450 superfamily signature 91 100 3.1E-8
4 g4970.t12 PRINTS PR00385 P450 superfamily signature 100 111 3.1E-8
8 g4970.t12 PRINTS PR00465 E-class P450 group IV signature 100 118 3.4E-18
1 g4970.t12 Pfam PF00067 Cytochrome P450 1 132 2.1E-46
13 g4970.t12 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 93 102 -
12 g4970.t12 SUPERFAMILY SSF48264 Cytochrome P450 2 148 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. There were no conditions that were differentially expressed