Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 6a19.

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 g4588 g4588.t2 TTS g4588.t2 3346581 3346581
chr_2 g4588 g4588.t2 isoform g4588.t2 3346685 3348783
chr_2 g4588 g4588.t2 exon g4588.t2.exon1 3346685 3346857
chr_2 g4588 g4588.t2 cds g4588.t2.CDS1 3346687 3346857
chr_2 g4588 g4588.t2 exon g4588.t2.exon2 3346919 3347160
chr_2 g4588 g4588.t2 cds g4588.t2.CDS2 3346919 3347160
chr_2 g4588 g4588.t2 exon g4588.t2.exon3 3347736 3348783
chr_2 g4588 g4588.t2 cds g4588.t2.CDS3 3347736 3348783
chr_2 g4588 g4588.t2 TSS g4588.t2 3348808 3348808

Sequences

>g4588.t2 Gene=g4588 Length=1463
ATGGAAATAATTTTATTCTTGATATTTTTGGTGATTTTATTTTTCTATCTTCTTGATCAT
CGATACACTTACTGGAAACGCAAAAATGTTCCCTATATTGAACCTGAATATTTTTATGGA
AACGCTCGTGGTTGTGGCACAACAATGTTTTCAGGTCTTTTCTACAGAGAAATGTATAAT
AAATTAAAGAAATTTAAGCCAATTGCAGGTTTTTATTTGTATTCTCAACCAGCAATTATG
GTGACAGATCTTGATTTGATAAAAACAATTTTTGTAAAAGATTTCAACAGTTTTCATGAA
CGTGGTGGTTATTATAATGAAAAAGATGATCCAACTAGCGCAAATATGGCAGTACTTGAA
GGCCATAAATGGAAAATATTGAGAAATAAAGTAACTCCGGTTTTCACAAGTGAAAAGATT
AAAAAAATGTTTTCAATAATTGGTAATGTTGCTGATAGAATGATTGACCGAATTGCATTT
GAAAGTAAAGAAGTTGGCTCAATAGATGTGAAAACACTTTTTACAAGATATACAACTGAT
GTTATTGGTGAAATTGCGTTTGGAATTTCTTGCAATAGTCTAAATGATTATTCTGCACCA
TTTTATAAATTTGGCACAGAAGCGTTTACTAATTTGAGTTTTTTAAAACGAACTTTTACT
ATGTATTATCCTAATTTAAGTCGTAAATTAGGCATTACTGTTAACAGACCAGAAATTGTT
GCATTTTATAAAGATGTCGTGGAGCAAACAATTAAATATCGAGAAGAAAATAACATTGAA
CGAAATGATGTTTTTTCATTGTTAATAAAATTAATGAAAAATTCTCAATTAACATTCAAT
GAAGTTTTAACTCAAAGCATAATGTTTTTCTTGGGTGGTTATGAAACAACTTCAAAAGTT
ATGATGTTCACAACATATTTGTTAAGCCAACATAAGGAAATCAGAGAAAAATTACGAAAA
AATATTGCAGAAGCATTAGCAATACATAATGGAGAATTTACTTATGAAGCTGTCAATGAA
ATGCATTATTTAGAGCAATGCATTAATGAATCAATGAGAATGTATCCAGTTGGACAAGCA
AGTAGAAGAATTGCTACAAAAGATTATCAAGTGCCAAATACAAAAGTAGTGATAGAAAAA
GGAACTCCTGTTTTTGTTTCATTTTATGGGATTAATCTTGACCCAGAGATTTATCCTAAT
CCTGAAAAGTTTGATCCTGATAGATTTTCACCTGAAGAAGTTGAGAAAAGACATAGTTCT
TCCTTTACTGTCTTTGGGCTAGGACCTAGAATGTGCCTTGCATCTCGTTTTGCAATGGTT
GAATTAAAAGTTACTATGGCCAAAATATTGATGAATTATGATTTCGAACTTGATCATTCT
AAAACACCATCGACTCTTACTTATGAAGTTCGACGTGTCATACTTACACCAAAGGAGGAT
ATATTTATAAATTTTAAAAGATT

>g4588.t2 Gene=g4588 Length=487
MEIILFLIFLVILFFYLLDHRYTYWKRKNVPYIEPEYFYGNARGCGTTMFSGLFYREMYN
KLKKFKPIAGFYLYSQPAIMVTDLDLIKTIFVKDFNSFHERGGYYNEKDDPTSANMAVLE
GHKWKILRNKVTPVFTSEKIKKMFSIIGNVADRMIDRIAFESKEVGSIDVKTLFTRYTTD
VIGEIAFGISCNSLNDYSAPFYKFGTEAFTNLSFLKRTFTMYYPNLSRKLGITVNRPEIV
AFYKDVVEQTIKYREENNIERNDVFSLLIKLMKNSQLTFNEVLTQSIMFFLGGYETTSKV
MMFTTYLLSQHKEIREKLRKNIAEALAIHNGEFTYEAVNEMHYLEQCINESMRMYPVGQA
SRRIATKDYQVPNTKVVIEKGTPVFVSFYGINLDPEIYPNPEKFDPDRFSPEEVEKRHSS
SFTVFGLGPRMCLASRFAMVELKVTMAKILMNYDFELDHSKTPSTLTYEVRRVILTPKED
IFINFKR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4588.t2 Coils Coil Coil 308 328 -
15 g4588.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 13 487 1.4E-125
2 g4588.t2 PANTHER PTHR24292 CYTOCHROME P450 5 486 5.8E-153
3 g4588.t2 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 486 5.8E-153
9 g4588.t2 PRINTS PR00463 E-class P450 group I signature 62 81 4.7E-19
7 g4588.t2 PRINTS PR00463 E-class P450 group I signature 281 298 4.7E-19
11 g4588.t2 PRINTS PR00385 P450 superfamily signature 292 309 2.0E-9
6 g4588.t2 PRINTS PR00463 E-class P450 group I signature 301 327 4.7E-19
10 g4588.t2 PRINTS PR00385 P450 superfamily signature 346 357 2.0E-9
5 g4588.t2 PRINTS PR00463 E-class P450 group I signature 387 411 4.7E-19
8 g4588.t2 PRINTS PR00463 E-class P450 group I signature 422 432 4.7E-19
13 g4588.t2 PRINTS PR00385 P450 superfamily signature 423 432 2.0E-9
4 g4588.t2 PRINTS PR00463 E-class P450 group I signature 432 455 4.7E-19
12 g4588.t2 PRINTS PR00385 P450 superfamily signature 432 443 2.0E-9
1 g4588.t2 Pfam PF00067 Cytochrome P450 40 480 4.0E-93
18 g4588.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
19 g4588.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
20 g4588.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
21 g4588.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
17 g4588.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 487 -
23 g4588.t2 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 425 434 -
14 g4588.t2 SUPERFAMILY SSF48264 Cytochrome P450 20 487 3.27E-109
22 g4588.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 3 25 -

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