Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome P450 6A1.

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_3 g48 g48.t4 TSS g48.t4 410853 410853
chr_3 g48 g48.t4 isoform g48.t4 410889 411950
chr_3 g48 g48.t4 exon g48.t4.exon1 410889 411235
chr_3 g48 g48.t4 cds g48.t4.CDS1 410889 411235
chr_3 g48 g48.t4 exon g48.t4.exon2 411293 411525
chr_3 g48 g48.t4 cds g48.t4.CDS2 411293 411525
chr_3 g48 g48.t4 exon g48.t4.exon3 411582 411882
chr_3 g48 g48.t4 cds g48.t4.CDS3 411582 411882
chr_3 g48 g48.t4 exon g48.t4.exon4 411941 411950
chr_3 g48 g48.t4 cds g48.t4.CDS4 411941 411950
chr_3 g48 g48.t4 TTS g48.t4 412694 412694

Sequences

>g48.t4 Gene=g48 Length=891
ATGGGTTTTGTTTTGACATTAATAATTATTTTAGTAATTTCATTTTATTTTTGGATGAAA
AAACATTTTAATTATTGGAAAAATCGAGGTTTTCTGCAAGTTGATGGATCATTTCCATTA
GGCTCACTTAGTGGTGTTGGAACAAAAATATGTTCGACTGAAAAATATGACTTGATTTAT
AAAGGTTTCAAGGGAAAAGCGTCGGTTGTTGGATTTTATAATTTTTTATCACCAGCAGTT
TTGCCAATTGAACCTGAATTGATTAAAAATATTTTGGTATTAAATTTTGCATCATTTCAT
GATCGTGGTCTTTATTATAATAAGAAAGATGATCCAATGAGTGCTAATTTAGTAGCTTTA
GAAGGTCAAGAATGGAAAGAACGTCGTACAAAAATCACCCCATTATTTTCATCAGGAAAG
ATTAAAATGATGTTTGAAATAGTCACTGAAATTGGTGATAAATTAGTAAATGCTATAAAA
AGAGAATTGAATGAGTCAACTGAACAAGATATGAGAGTTTGGGCACAAAAATATACAAAT
GATACAATTAGCAATATCGCATTTGGACTCTCTCTTTCTTGTCTTGATGGTGAAAATTTG
GAATTTTTAAAAAATGGAAAGAGACTTTTTGAGCTTAAACCATGGGAAGTTTTGAAAATT
CTTTTTACATCTGAAATGCCAAAACTTAGTAGATTTCTTCGTTTGAAATTCACTGCTGGA
AATACTGGAGAATTTTTTCATAAAACTTTTCTTGAAACTTTTAATTATCGTCAAAATAAT
TCAATTGAACGCAATGATTTAGTGTCGTTGTTGTTAAAACTGAAAGATGTTTATACTCTG
ACAGAACTTGCAGCTGAAGCATTTTTAGTATACACTGGCGGATTTGAGACA

>g48.t4 Gene=g48 Length=297
MGFVLTLIIILVISFYFWMKKHFNYWKNRGFLQVDGSFPLGSLSGVGTKICSTEKYDLIY
KGFKGKASVVGFYNFLSPAVLPIEPELIKNILVLNFASFHDRGLYYNKKDDPMSANLVAL
EGQEWKERRTKITPLFSSGKIKMMFEIVTEIGDKLVNAIKRELNESTEQDMRVWAQKYTN
DTISNIAFGLSLSCLDGENLEFLKNGKRLFELKPWEVLKILFTSEMPKLSRFLRLKFTAG
NTGEFFHKTFLETFNYRQNNSIERNDLVSLLLKLKDVYTLTELAAEAFLVYTGGFET

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g48.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 14 297 3.7E-47
2 g48.t4 PANTHER PTHR24292 CYTOCHROME P450 4 297 5.9E-75
3 g48.t4 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 4 297 5.9E-75
5 g48.t4 PRINTS PR00464 Group II E-class P450 signature 122 142 3.9E-8
4 g48.t4 PRINTS PR00464 Group II E-class P450 signature 177 195 3.9E-8
1 g48.t4 Pfam PF00067 Cytochrome P450 68 297 8.1E-24
10 g48.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
11 g48.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
12 g48.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
13 g48.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
9 g48.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 297 -
7 g48.t4 SUPERFAMILY SSF48264 Cytochrome P450 64 297 1.1E-35
6 g48.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 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