Gene loci information

Transcript annotation

  • This transcript has been annotated as 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_4 g15190 g15190.t1 isoform g15190.t1 4427698 4429703
chr_4 g15190 g15190.t1 exon g15190.t1.exon1 4427698 4427860
chr_4 g15190 g15190.t1 cds g15190.t1.CDS1 4427698 4427860
chr_4 g15190 g15190.t1 exon g15190.t1.exon2 4427976 4428388
chr_4 g15190 g15190.t1 cds g15190.t1.CDS2 4427976 4428388
chr_4 g15190 g15190.t1 exon g15190.t1.exon3 4428444 4428594
chr_4 g15190 g15190.t1 cds g15190.t1.CDS3 4428444 4428594
chr_4 g15190 g15190.t1 exon g15190.t1.exon4 4428847 4429122
chr_4 g15190 g15190.t1 cds g15190.t1.CDS4 4428847 4429122
chr_4 g15190 g15190.t1 exon g15190.t1.exon5 4429178 4429407
chr_4 g15190 g15190.t1 cds g15190.t1.CDS5 4429178 4429407
chr_4 g15190 g15190.t1 exon g15190.t1.exon6 4429482 4429703
chr_4 g15190 g15190.t1 cds g15190.t1.CDS6 4429482 4429703
chr_4 g15190 g15190.t1 TSS g15190.t1 NA NA
chr_4 g15190 g15190.t1 TTS g15190.t1 NA NA

Sequences

>g15190.t1 Gene=g15190 Length=1455
ATGAGAAATGCAGTTCAAAATGCAAAACCATATTCGGAAGTTCCAACGGTGTCAGTTCCA
AAATTTATCTTAAGAAATTTACCTGGTGGAAAATATTATAAAAAATCTTTGAAAGAAATT
CAAGAATCATTTTATAATGAGTTTGGAAATATTTTCAAATTGCCTGCAATGTTTGGCAAA
CCTGAAATGATTTTTATTTACAAAGCTGATGACTTTGAAACTGCATTTAGGGCCGAAGGG
TCTTGGCCAGTTCGATTGAGTCTTGACACATTGAAATATTACAGAGATTTAAAGCAATCT
AAAGTTTATGAAGAATTTGGCAGTTTAGGAACAAACCATGGACCAAATTGGCAAACGACA
AGGTCAATTATAAACCCAATAATGTTGCAACCAAAAGTTGTCAAAATGTACACAAAACAA
ATCGATGAAATTTCTAAAGAATTTGTTCAAATAATGCGTGATATAAAAGATAAAAATGAT
GAAATGCCTGGTGATTTTTACAATTACATAAAAAGATGGACAGTTGAGTCAACTGCATCA
ATTGCAGTCGAAAAACGTTTAAATATTTTAAGTGGTAAAACAAATGATGAAAGAAGCAAA
AAACTCTTAAAATTGTCAATGGAATTTTTCGAAAAAATGTCAGATTTTGAAATGAAGCCA
TCAATTTGGAGATATTATGAGACAAAAGCTTTTAAGGAACTTATGGAAGTTTATGATTCA
ATTACAAGCATTATCTTTAGTTATGTCAATGAAGCTATAAAAAGATTTGAAACGGAAGAA
ATCAAAGAAATTCAAGAAGAAAGCATTTTGAGAAAACTCATGAAAATAAACAAGAATATT
GCTTTTGTTATTACTAGTGACATGCTTATAGCTGATATGACCAATTCAGCAGCTGCATTT
GCTCTTTATTTTATTGCTAAAAATCCTGAAAAACAAGAAAAATTGCGTCTTGAAATCAAT
TCTTTGATGCCAGATAAAAATTCTCCTATAGAATCACAAAGTATGAAAAACTTGCCATAT
TTGAGAGCAGTTATAAAAGAAAGTTTGAGAATGCAACCAATAGTCAGTGGAAATTCGAGA
AAAATCGCTAAAGATGTGGTGCTTGCTGGTTATCATGTACCAAAAGATACAATGGTCTTC
ATGAATGCTTACATTGAACTGTCGAATCCAAAATACTATCCAGAACCCGAGAAATTCATT
CCTGAACGTTGGTTGAGAGATGAAAAGTATGAAAACTGGAGATCGAAAGAAAATAATCCA
TTTGCATTTTTGCCTTTCGGATTTGGTGCGAGATCGTGCATTGGAAAACGATTTGCTGAA
CTCCAAATGGAATTGTTAATTGCAAATGTCATCAGGAATTTCAAATTGGAGTGGAATTAT
CCAGATATGAAAGTCAAAGGTCTTTTAGCAAATTTTCCGGATTCTGAATTGAAAATTAAA
GTTACTGAAGTTTAA

>g15190.t1 Gene=g15190 Length=484
MRNAVQNAKPYSEVPTVSVPKFILRNLPGGKYYKKSLKEIQESFYNEFGNIFKLPAMFGK
PEMIFIYKADDFETAFRAEGSWPVRLSLDTLKYYRDLKQSKVYEEFGSLGTNHGPNWQTT
RSIINPIMLQPKVVKMYTKQIDEISKEFVQIMRDIKDKNDEMPGDFYNYIKRWTVESTAS
IAVEKRLNILSGKTNDERSKKLLKLSMEFFEKMSDFEMKPSIWRYYETKAFKELMEVYDS
ITSIIFSYVNEAIKRFETEEIKEIQEESILRKLMKINKNIAFVITSDMLIADMTNSAAAF
ALYFIAKNPEKQEKLRLEINSLMPDKNSPIESQSMKNLPYLRAVIKESLRMQPIVSGNSR
KIAKDVVLAGYHVPKDTMVFMNAYIELSNPKYYPEPEKFIPERWLRDEKYENWRSKENNP
FAFLPFGFGARSCIGKRFAELQMELLIANVIRNFKLEWNYPDMKVKGLLANFPDSELKIK
VTEV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g15190.t1 Coils Coil Coil 141 161 -
14 g15190.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 2 483 2.2E-113
2 g15190.t1 PANTHER PTHR24291:SF155 CYTOCHROME P450 301B1 28 466 7.9E-109
3 g15190.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 28 466 7.9E-109
4 g15190.t1 PRINTS PR00463 E-class P450 group I signature 298 324 1.2E-17
11 g15190.t1 PRINTS PR00385 P450 superfamily signature 307 320 2.3E-11
7 g15190.t1 PRINTS PR00463 E-class P450 group I signature 342 360 1.2E-17
10 g15190.t1 PRINTS PR00385 P450 superfamily signature 343 354 2.3E-11
8 g15190.t1 PRINTS PR00463 E-class P450 group I signature 382 406 1.2E-17
6 g15190.t1 PRINTS PR00463 E-class P450 group I signature 423 433 1.2E-17
9 g15190.t1 PRINTS PR00385 P450 superfamily signature 424 433 2.3E-11
5 g15190.t1 PRINTS PR00463 E-class P450 group I signature 433 456 1.2E-17
12 g15190.t1 PRINTS PR00385 P450 superfamily signature 433 444 2.3E-11
1 g15190.t1 Pfam PF00067 Cytochrome P450 23 458 1.1E-75
16 g15190.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 279 -
18 g15190.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 280 306 -
17 g15190.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 307 484 -
19 g15190.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 426 435 -
13 g15190.t1 SUPERFAMILY SSF48264 Cytochrome P450 21 482 3.14E-81

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

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. There were no conditions that were differentially expressed