Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable cytochrome P450 6a20.

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.t2 TSS g15290.t2 4842247 4842247
chr_4 g15290 g15290.t2 isoform g15290.t2 4842277 4843150
chr_4 g15290 g15290.t2 exon g15290.t2.exon1 4842277 4843150
chr_4 g15290 g15290.t2 cds g15290.t2.CDS1 4842277 4843149
chr_4 g15290 g15290.t2 TTS g15290.t2 NA NA

Sequences

>g15290.t2 Gene=g15290 Length=874
ATGTTATTTCAACTTTGTCTAGTTTTGTTAGCAATTTTTTTGTGGTTTAAAAATCGCTTC
AATTACTGGCATAAACGCGGTTTTCCTTATGTACCTGGAAAAATTCCATTAGGAAGTACC
CCAACTGCAGGGATAAGTGAACATTCATGCACAGTTTTCCAGCGTGAATATGAAAAGTTT
AAGGATAGAGGACCAGCATTTGGTGTATTTGGAATGGCAAAACCAATGTTAGTTCCAACT
GATCCAGATTTAATCAGAGAGATTTTTGTGAAAAATTTTGAAGTGTTTCACGAACGTGGA
TTTAATATCAGTGAAGAAGCTGATCCATTATCACAACATTTGTCATTTAAAAATGGACAA
GAATGGAAAGATTTAAGATCAAAATTGAGTCAAGTTTTTTCATCTGGCAAAATAAAAATG
ATGTTCCCAAATGTAATGAGAATTTGTGACCGAATGATTGATTATTTGATGCCATATGCA
GAAAAAATTGAACCACTTGAAATGAAAGATGTTTATTGTTCTTTTACCACTGAAGTCATC
TCTGATTGTGCATTTGGAATCACTGCGGATTGTTTGGGAAATCCTGATAATGAATTTAAA
AAATGTGCAAAGAAAATATTTGAACCAACAGCGTTTGAAATGATAAAATTAATGCTGATT
ATTTCTTTTGAAAGTGTTGGAGAATTTTTCAAAATTGGTTTTAATGGAAAAGAAGTGACA
GATTTTATTATGAAAGTAGTTCGACAAACATTAGACTATCGTGAAAAGAACAATGTAGAA
AGAAATGATTTCTTTCAATTACTTATGAATATGAAAAAAACTGGAGATATGACATTTAAT
GATATCGCTGCTAATTCATTTGTCTTCTTTTTGG

>g15290.t2 Gene=g15290 Length=291
MLFQLCLVLLAIFLWFKNRFNYWHKRGFPYVPGKIPLGSTPTAGISEHSCTVFQREYEKF
KDRGPAFGVFGMAKPMLVPTDPDLIREIFVKNFEVFHERGFNISEEADPLSQHLSFKNGQ
EWKDLRSKLSQVFSSGKIKMMFPNVMRICDRMIDYLMPYAEKIEPLEMKDVYCSFTTEVI
SDCAFGITADCLGNPDNEFKKCAKKIFEPTAFEMIKLMLIISFESVGEFFKIGFNGKEVT
DFIMKVVRQTLDYREKNNVERNDFFQLLMNMKKTGDMTFNDIAANSFVFFL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15290.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 11 291 2.2E-54
2 g15290.t2 PANTHER PTHR24292 CYTOCHROME P450 5 291 5.4E-82
3 g15290.t2 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 291 5.4E-82
5 g15290.t2 PRINTS PR00464 Group II E-class P450 signature 119 139 4.5E-7
4 g15290.t2 PRINTS PR00464 Group II E-class P450 signature 174 192 4.5E-7
1 g15290.t2 Pfam PF00067 Cytochrome P450 57 290 4.2E-27
10 g15290.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
11 g15290.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
12 g15290.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
13 g15290.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
9 g15290.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 291 -
6 g15290.t2 SUPERFAMILY SSF48264 Cytochrome P450 19 291 3.01E-40
7 g15290.t2 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: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.

Raw TPM values