Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 6a13.

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 g15290 g15290.t1 TSS g15290.t1 4842247 4842247
chr_4 g15290 g15290.t1 isoform g15290.t1 4842277 4843853
chr_4 g15290 g15290.t1 exon g15290.t1.exon1 4842277 4843153
chr_4 g15290 g15290.t1 cds g15290.t1.CDS1 4842277 4843153
chr_4 g15290 g15290.t1 exon g15290.t1.exon2 4843212 4843641
chr_4 g15290 g15290.t1 cds g15290.t1.CDS2 4843212 4843641
chr_4 g15290 g15290.t1 exon g15290.t1.exon3 4843697 4843853
chr_4 g15290 g15290.t1 cds g15290.t1.CDS3 4843697 4843853
chr_4 g15290 g15290.t1 TTS g15290.t1 NA NA

Sequences

>g15290.t1 Gene=g15290 Length=1464
ATGTTATTTCAACTTTGTCTAGTTTTGTTAGCAATTTTTTTGTGGTTTAAAAATCGCTTC
AATTACTGGCATAAACGCGGTTTTCCTTATGTACCTGGAAAAATTCCATTAGGAAGTACC
CCAACTGCAGGGATAAGTGAACATTCATGCACAGTTTTCCAGCGTGAATATGAAAAGTTT
AAGGATAGAGGACCAGCATTTGGTGTATTTGGAATGGCAAAACCAATGTTAGTTCCAACT
GATCCAGATTTAATCAGAGAGATTTTTGTGAAAAATTTTGAAGTGTTTCACGAACGTGGA
TTTAATATCAGTGAAGAAGCTGATCCATTATCACAACATTTGTCATTTAAAAATGGACAA
GAATGGAAAGATTTAAGATCAAAATTGAGTCAAGTTTTTTCATCTGGCAAAATAAAAATG
ATGTTCCCAAATGTAATGAGAATTTGTGACCGAATGATTGATTATTTGATGCCATATGCA
GAAAAAATTGAACCACTTGAAATGAAAGATGTTTATTGTTCTTTTACCACTGAAGTCATC
TCTGATTGTGCATTTGGAATCACTGCGGATTGTTTGGGAAATCCTGATAATGAATTTAAA
AAATGTGCAAAGAAAATATTTGAACCAACAGCGTTTGAAATGATAAAATTAATGCTGATT
ATTTCTTTTGAAAGTGTTGGAGAATTTTTCAAAATTGGTTTTAATGGAAAAGAAGTGACA
GATTTTATTATGAAAGTAGTTCGACAAACATTAGACTATCGTGAAAAGAACAATGTAGAA
AGAAATGATTTCTTTCAATTACTTATGAATATGAAAAAAACTGGAGATATGACATTTAAT
GATATCGCTGCTAATTCATTTGTCTTCTTTTTGGCTGGATTCGAGACGAGCTCAAGTGTG
ATGACATTTAGTACTTATGAGCTTGCATTAAATCAAGACATTCAAGATAGACTTCGTACT
GAAATTAATGAAGTTATTGCAAAACACAATGGAGAAGTCACTTATGAATCTATAATGGAA
ATGAAATATCTTGACATGGTTTTTAATGAGTCTTTACGAAAGTATCCTGTTGTAGATTTT
CAAATTCGTCAATCTGTCAAAGATTTTCCAATAGCAAATACAAATTTAGTAATTCCTGCT
AAGACAATGATTATAGTTCCAGTTCATGCAATTCACAATGATGAAAAATATTATGAAAAT
CCAGATAAATTTGATCCTGAAAGGTTTACTGATGAAAATGTTAAGAAACGTCATCCTTTT
ACTTATTTGCCTTTTTCACATGGTCCACGTACATGCATTGGAATGAGATTTGGAACACTT
CAAACGAAAATTGGACTAATCAAATTGTTGAGGAATTTCAGAATTTTGCCATGCAGTAAA
ACTATTATTCCAATGAAATTTAGTCCTAATGCGCAATTTCAAAGTCCATTAGGTGGAATG
TGGTTGAAATTAGAAAAGATTTGA

>g15290.t1 Gene=g15290 Length=487
MLFQLCLVLLAIFLWFKNRFNYWHKRGFPYVPGKIPLGSTPTAGISEHSCTVFQREYEKF
KDRGPAFGVFGMAKPMLVPTDPDLIREIFVKNFEVFHERGFNISEEADPLSQHLSFKNGQ
EWKDLRSKLSQVFSSGKIKMMFPNVMRICDRMIDYLMPYAEKIEPLEMKDVYCSFTTEVI
SDCAFGITADCLGNPDNEFKKCAKKIFEPTAFEMIKLMLIISFESVGEFFKIGFNGKEVT
DFIMKVVRQTLDYREKNNVERNDFFQLLMNMKKTGDMTFNDIAANSFVFFLAGFETSSSV
MTFSTYELALNQDIQDRLRTEINEVIAKHNGEVTYESIMEMKYLDMVFNESLRKYPVVDF
QIRQSVKDFPIANTNLVIPAKTMIIVPVHAIHNDEKYYENPDKFDPERFTDENVKKRHPF
TYLPFSHGPRTCIGMRFGTLQTKIGLIKLLRNFRILPCSKTIIPMKFSPNAQFQSPLGGM
WLKLEKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g15290.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 11 487 3.8E-134
2 g15290.t1 PANTHER PTHR24292 CYTOCHROME P450 5 487 1.1E-172
3 g15290.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 487 1.1E-172
8 g15290.t1 PRINTS PR00463 E-class P450 group I signature 84 105 1.5E-21
7 g15290.t1 PRINTS PR00463 E-class P450 group I signature 281 298 1.5E-21
12 g15290.t1 PRINTS PR00385 P450 superfamily signature 292 309 9.9E-10
6 g15290.t1 PRINTS PR00463 E-class P450 group I signature 301 327 1.5E-21
9 g15290.t1 PRINTS PR00463 E-class P450 group I signature 345 363 1.5E-21
11 g15290.t1 PRINTS PR00385 P450 superfamily signature 346 357 9.9E-10
5 g15290.t1 PRINTS PR00463 E-class P450 group I signature 387 411 1.5E-21
10 g15290.t1 PRINTS PR00463 E-class P450 group I signature 422 432 1.5E-21
14 g15290.t1 PRINTS PR00385 P450 superfamily signature 423 432 9.9E-10
4 g15290.t1 PRINTS PR00463 E-class P450 group I signature 432 455 1.5E-21
13 g15290.t1 PRINTS PR00385 P450 superfamily signature 432 443 9.9E-10
1 g15290.t1 Pfam PF00067 Cytochrome P450 57 470 9.3E-97
19 g15290.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
20 g15290.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
21 g15290.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
22 g15290.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
18 g15290.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 487 -
23 g15290.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 425 434 -
15 g15290.t1 SUPERFAMILY SSF48264 Cytochrome P450 48 485 4.19E-114
16 g15290.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 19 -

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.

Raw TPM values