Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g15289 g15289.t3 TSS g15289.t3 4840314 4840314
chr_4 g15289 g15289.t3 isoform g15289.t3 4840345 4841929
chr_4 g15289 g15289.t3 exon g15289.t3.exon1 4840345 4841225
chr_4 g15289 g15289.t3 cds g15289.t3.CDS1 4840345 4841225
chr_4 g15289 g15289.t3 exon g15289.t3.exon2 4841287 4841929
chr_4 g15289 g15289.t3 cds g15289.t3.CDS2 4841287 4841719
chr_4 g15289 g15289.t3 TTS g15289.t3 4841976 4841976

Sequences

>g15289.t3 Gene=g15289 Length=1524
ATGTGGTTTCAAATCGCTCTAGTTTTTCTCTGCATTTATTTGTGGTTTAGAAATCGTTAT
GAATATTTTAAAAGACTCGGAATTCCTTTCGTCCCTCCAACATTTCCTTATGGAAGCAGC
TCTACAGTTAGTAGAACTGAGCATATTGGTGATGTTTTAAGACAACAATACGAAAAATTC
AAAAATCAAGGGCCTGCATTTGGAACTTTTATATTTGCTAAGCCATTACTAGTGCCAACT
GATCCCGAACTAGTAAAAGAAATTTTTGTAAGAAATTTCGAAAGTTTCCATGACCATGGT
TTTATATACAATGAAAAAGTTGATCCATTATCTGCAAATCTTTTCTTTAAAAATGGACAA
GAATGGAAAGATTTAAGAAATAAGCTATCGCCGACATTTACATCAGGACGAATGAAAATG
ATGTTTCCATTAGTATTAAATGCATCAAATCGTTTGATAGACTATTTGGTGCCATATGCA
GAAAAATCTAAACCATTTGAAGTTAAAGAAGTTTACAGTTCATTCACTACTGAAGTTATC
TCTGATGTTGCATTTGGGATAACTACAAAATGCTTGGGCAATCCAAATAATGATTTTAGA
AAAATGGCAAGAGCTGTCTTTGAACCAAATATTTGGGAAAGTATGAGAGTATTTTTCGTA
TTTTCCTTTGAAAAGTTAGCAATGTTTCTCAACATGAGTTTTAATCCAAAACATGTGACT
GAATTTTTCATGGGAACTGTTCGAGATACTTTGAATTATCGAGAGAAAAATAAGGTAGAA
AGAAATGACTTTTTCCAATTGCTAATGAATATTAAAAACAGTCCAGAAGGAATGTCTTTC
AATGAAGTGGCTGCAAATTCGTTTGTATTTATGGTTGCTGGATTTGAGACAAGTTCAAGT
GTTTTGACATTCACTAGTTATGAATTGGCATTGAATCAAGACATACAAGATAAATTAAGA
AATGAAATTAATGAAGTTTTGGCCAATCACAATGGAGAAATCACTTATGATGCTATCATG
GAAATGAAATATCTTGACATGGTCTTTAATGAGTCATTGAGAAAATATCCAGGCGTTGAT
TCTCAAAATCGTAAAGCAACAAAAGATTTTACTATACCTAATACTAACATAACAATTCCT
GCTGGAACTTCTATAATGATTTCTTCATATGCGCTTCATAATGATGAAAGATTCTGGGAA
AATCCTGAGAAATTCGATCCAGACAGATTCTTGCCTGAAAATGTTCATAAACGTCATCCA
TTCTGTTACATTCCATTCAGTGAAGGCCCAAGACAGTGTATTGGATTGAGGTAAAAAAAA
TTTTTTTTAAAATATTTAACATCATTATAAAATTTATTTTGATTTAGATTTGGTCAAATG
CAGTCTAAAATTGGCATTGTAAATTTAATAAAGAACTTTAGAATTCTACCATGCAGCAAG
ACAATTATTCCAATGAAATTTTCACCAACTGCAGCTTTTCAATCACCTGTAGGTGGAATG
TGGCTTAAATTTGAAAAACTTTAA

>g15289.t3 Gene=g15289 Length=437
MWFQIALVFLCIYLWFRNRYEYFKRLGIPFVPPTFPYGSSSTVSRTEHIGDVLRQQYEKF
KNQGPAFGTFIFAKPLLVPTDPELVKEIFVRNFESFHDHGFIYNEKVDPLSANLFFKNGQ
EWKDLRNKLSPTFTSGRMKMMFPLVLNASNRLIDYLVPYAEKSKPFEVKEVYSSFTTEVI
SDVAFGITTKCLGNPNNDFRKMARAVFEPNIWESMRVFFVFSFEKLAMFLNMSFNPKHVT
EFFMGTVRDTLNYREKNKVERNDFFQLLMNIKNSPEGMSFNEVAANSFVFMVAGFETSSS
VLTFTSYELALNQDIQDKLRNEINEVLANHNGEITYDAIMEMKYLDMVFNESLRKYPGVD
SQNRKATKDFTIPNTNITIPAGTSIMISSYALHNDERFWENPEKFDPDRFLPENVHKRHP
FCYIPFSEGPRQCIGLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g15289.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 11 437 1.8E-125
2 g15289.t3 PANTHER PTHR24292 CYTOCHROME P450 6 437 4.9E-160
3 g15289.t3 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 6 437 4.9E-160
7 g15289.t3 PRINTS PR00463 E-class P450 group I signature 60 79 3.2E-17
5 g15289.t3 PRINTS PR00463 E-class P450 group I signature 84 105 3.2E-17
9 g15289.t3 PRINTS PR00463 E-class P450 group I signature 282 299 3.2E-17
10 g15289.t3 PRINTS PR00385 P450 superfamily signature 293 310 2.9E-8
4 g15289.t3 PRINTS PR00463 E-class P450 group I signature 302 328 3.2E-17
13 g15289.t3 PRINTS PR00385 P450 superfamily signature 347 358 2.9E-8
8 g15289.t3 PRINTS PR00463 E-class P450 group I signature 388 412 3.2E-17
6 g15289.t3 PRINTS PR00463 E-class P450 group I signature 423 433 3.2E-17
11 g15289.t3 PRINTS PR00385 P450 superfamily signature 424 433 2.9E-8
12 g15289.t3 PRINTS PR00385 P450 superfamily signature 433 437 2.9E-8
1 g15289.t3 Pfam PF00067 Cytochrome P450 39 436 6.8E-92
18 g15289.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
19 g15289.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
20 g15289.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
21 g15289.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
17 g15289.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 437 -
15 g15289.t3 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 426 435 -
14 g15289.t3 SUPERFAMILY SSF48264 Cytochrome P450 47 437 4.71E-106

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