Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g8105 g8105.t2 TTS g8105.t2 28580827 28580827
chr_2 g8105 g8105.t2 isoform g8105.t2 28581196 28582518
chr_2 g8105 g8105.t2 exon g8105.t2.exon1 28581196 28581516
chr_2 g8105 g8105.t2 cds g8105.t2.CDS1 28581196 28581516
chr_2 g8105 g8105.t2 exon g8105.t2.exon2 28581571 28582086
chr_2 g8105 g8105.t2 cds g8105.t2.CDS2 28581571 28582086
chr_2 g8105 g8105.t2 exon g8105.t2.exon3 28582146 28582299
chr_2 g8105 g8105.t2 cds g8105.t2.CDS3 28582146 28582298
chr_2 g8105 g8105.t2 exon g8105.t2.exon4 28582507 28582518
chr_2 g8105 g8105.t2 TSS g8105.t2 28582526 28582526

Sequences

>g8105.t2 Gene=g8105 Length=1003
TCTAATAGAAGTAATGCGTGCAATAAGGAACGAGAATAATGAAATGCCTGCTGATTTTTT
TGAAACATTAAATGAATGGTCGCTTGAAAGTATAGCGCTTATAGCTCTAGATACGAGATT
AGGGCTATTAAAAGGAAATAATCCTGAAGCACAAAAGCTCTATGAATTGGTGAAAGAAGT
TTTTACAGCCTCTTATGAATATGACATACAGCCCAGTATTTGGAGATATTATCAAACACC
AGGATTTAAGAAAGCAATGAAGTCTTTTGACGCTGTAACAGATACGATTTATAAATATAT
CGAAAAAGCTCTAGAAAAATATAAAAAGAATCCAAATGAGAATGAAAGTGGTGTTCTAGA
AAAACTTTTAAAAATAGATAAAAATATTGCTATTGTCATGGCAATGGATATGCTTGGAGC
TGGAATCGATACAACATCTTCAAGTGTCGTTGCAAATCTGTATTGCTTAGCAAAAAATCA
AGATAAACAAGAAATTTTGCGTCAAGAAATTCTTAAAGTCTTGCCTACAAAAGAAACCAA
ATTGGATACAAAATCCTTAGATAATGTGCCTTATTTACGTGCAGTGATCAAAGAATCACT
TCGAATGCATCCAATATTTAGTGGAAATTCTAGAGCAGTTGATTGTGATTTAGTTTTACA
AGGATATCAAATACCTAAAGGGATCGATATACTTCTTGTCGCCAATTCACATAATGAGCA
TTTTGATCAAGCTGATAAATTTATTCCAGAGAGATGGCTAAAAGATAATACCGATCCAAA
ATGTCCACATGCAAAAGATTCACATCCTTTTGCATTTTTGCCTTTTGGATTCGCTTCACG
TGCTTGTATCGGCAAAAGAATGGCAAATATGGAAATGGAAGTTCTGATTGCAAGAGTGCT
TCGGGAATTTAAAATTGAATGGAATCATTCAGATATAAAATGGAAAAGCGTTATTATCAA
CTATCCTGATTCACCTTTAAAATTTAAAGCAATTGATATTTAA

>g8105.t2 Gene=g8105 Length=329
MRAIRNENNEMPADFFETLNEWSLESIALIALDTRLGLLKGNNPEAQKLYELVKEVFTAS
YEYDIQPSIWRYYQTPGFKKAMKSFDAVTDTIYKYIEKALEKYKKNPNENESGVLEKLLK
IDKNIAIVMAMDMLGAGIDTTSSSVVANLYCLAKNQDKQEILRQEILKVLPTKETKLDTK
SLDNVPYLRAVIKESLRMHPIFSGNSRAVDCDLVLQGYQIPKGIDILLVANSHNEHFDQA
DKFIPERWLKDNTDPKCPHAKDSHPFAFLPFGFASRACIGKRMANMEMEVLIARVLREFK
IEWNHSDIKWKSVIINYPDSPLKFKAIDI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g8105.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 328 0
2 g8105.t2 PANTHER PTHR24305:SF194 CYTOCHROME P450 12A4, MITOCHONDRIAL-RELATED 14 325 0
3 g8105.t2 PANTHER PTHR24305 CYTOCHROME P450 14 325 0
6 g8105.t2 PRINTS PR00463 E-class P450 group I signature 125 142 0
11 g8105.t2 PRINTS PR00385 P450 superfamily signature 136 153 0
7 g8105.t2 PRINTS PR00463 E-class P450 group I signature 189 207 0
10 g8105.t2 PRINTS PR00385 P450 superfamily signature 190 201 0
8 g8105.t2 PRINTS PR00463 E-class P450 group I signature 226 250 0
4 g8105.t2 PRINTS PR00463 E-class P450 group I signature 268 278 0
12 g8105.t2 PRINTS PR00385 P450 superfamily signature 269 278 0
5 g8105.t2 PRINTS PR00463 E-class P450 group I signature 278 301 0
9 g8105.t2 PRINTS PR00385 P450 superfamily signature 278 289 0
1 g8105.t2 Pfam PF00067 Cytochrome P450 5 308 0
13 g8105.t2 SUPERFAMILY SSF48264 Cytochrome P450 4 326 0

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: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