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_2 g4589 g4589.t3 TTS g4589.t3 3351404 3351404
chr_2 g4589 g4589.t3 isoform g4589.t3 3351505 3353091
chr_2 g4589 g4589.t3 exon g4589.t3.exon1 3351505 3351681
chr_2 g4589 g4589.t3 cds g4589.t3.CDS1 3351505 3351681
chr_2 g4589 g4589.t3 exon g4589.t3.exon2 3351737 3351978
chr_2 g4589 g4589.t3 cds g4589.t3.CDS2 3351737 3351978
chr_2 g4589 g4589.t3 exon g4589.t3.exon3 3352032 3352364
chr_2 g4589 g4589.t3 cds g4589.t3.CDS3 3352032 3352364
chr_2 g4589 g4589.t3 exon g4589.t3.exon4 3352452 3353091
chr_2 g4589 g4589.t3 cds g4589.t3.CDS4 3352452 3353091
chr_2 g4589 g4589.t3 TSS g4589.t3 3353129 3353129

Sequences

>g4589.t3 Gene=g4589 Length=1392
ATGGAGCTAACAACGCTTCTTTTTACAATTTTTACCGGAATTTCGTTATTTATTTACTAT
TTTATACATCGTCGTTTAAATTATTGGAAGGTCAGAAATGTACCACACATTGAACCAGAA
TTTTTCCATGGAAACGCTCGTGGTGTCGGCAAAACAATATCTCCTGGTAAATTTTTCAAG
GACATGTACTTTAAACTAAAGAATAAAGGTCCAGTAGTTGGCGTATACATGTATGTAGAA
CCAATGGCAATAATAATGGATTTAGATTTAGTGAAAACAATTCTCGTGAAAGAATTTAAT
ACTTTTCCAAATCGTGGACTTTATCATAATGAAAAAGATGATCCAACAAGTGCAAATTTA
GCATCAATTGAAGATGAACAGTGGAAAATTTTAAGAAATAAAATATCACCAACATTCTCC
AGTGGAAAAATTAAAAACATGTTTCCAATAGTAGGTGAAGTAGCTGATAAAATGATTGAA
CGTATTGAAATTGATAGCAAAGAGAAAGGCTCGATTGAAGTGAAAGATATTTTAGCGAGA
TTTACAACAGATGTGATTGGAAGAGTTGGATTTGGAATAGAGTGCAATAGTTTAGATGAT
AACACAACAAAATTCTATCAAATTGGTTTAAAAGCGTTCATTGCTGGCTTTTATAAAGAT
ATTGTTGAGCAAACAATCAAATATCGTATAGATAATAATATTCAGAGCAATGACTTTATG
TCACTTTTAATGAAGATGATGAAAGATAACTCTTTGACCTTTAATGAAGTCTGGTCACAA
TCAGTAGTTTTCTTTCTAGCTGGTTATGAAACAAGTTCTACAGCTTTAAATTATTGTTTA
TATGAAATGTCTCAAAGAAAAGACATTTGTGATAAAGCAAGAGAATCAGTGAAAAAAGCA
TTAGAAAAACATAACGGAGAATTAAATTATGATGCTGTCAATGACATGCAATATATTGAA
CAATGTGTTAATGAGGCTTTAAGAAAACATCCGCCAGCTAATGCTACAAGAAGAATTCCA
AGAGAAGATTTTCAAGTGCCAAATAGTAAAATTGTGATTGAAAAAGGAGTTCATGTAATT
ATTCCAGTTTGGGGAATCCATTTCGATCCAGAAATCTATCCAGAACCAGAAACTTATAAT
CCAGACAGATTTACTCCTGAAGAAGTAGCTAAAAGACATAACATGAGCTTTCTACCATTC
GGTGAAGGCCCAAGAGTTTGCATTGGTGAAAGATTTGCTATGGTCGAAATTAAATTAGCT
TTAGCAAAAATTCTCATGAATTTTGAATTTGAGCTTGACTACTCAAAAACTCCAGTTCCA
ATGCCTTATGAAACCAAGAGACTAATTTTGACGGCAGCTAAAGGAGTTTTTATAAAATTT
AGGAAAATTTAA

>g4589.t3 Gene=g4589 Length=463
MELTTLLFTIFTGISLFIYYFIHRRLNYWKVRNVPHIEPEFFHGNARGVGKTISPGKFFK
DMYFKLKNKGPVVGVYMYVEPMAIIMDLDLVKTILVKEFNTFPNRGLYHNEKDDPTSANL
ASIEDEQWKILRNKISPTFSSGKIKNMFPIVGEVADKMIERIEIDSKEKGSIEVKDILAR
FTTDVIGRVGFGIECNSLDDNTTKFYQIGLKAFIAGFYKDIVEQTIKYRIDNNIQSNDFM
SLLMKMMKDNSLTFNEVWSQSVVFFLAGYETSSTALNYCLYEMSQRKDICDKARESVKKA
LEKHNGELNYDAVNDMQYIEQCVNEALRKHPPANATRRIPREDFQVPNSKIVIEKGVHVI
IPVWGIHFDPEIYPEPETYNPDRFTPEEVAKRHNMSFLPFGEGPRVCIGERFAMVEIKLA
LAKILMNFEFELDYSKTPVPMPYETKRLILTAAKGVFIKFRKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g4589.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 463 2.0E-120
4 g4589.t3 PANTHER PTHR24292 CYTOCHROME P450 7 213 1.3E-156
6 g4589.t3 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 7 213 1.3E-156
3 g4589.t3 PANTHER PTHR24292 CYTOCHROME P450 214 463 1.3E-156
5 g4589.t3 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 214 463 1.3E-156
8 g4589.t3 PRINTS PR00463 E-class P450 group I signature 66 85 1.2E-18
14 g4589.t3 PRINTS PR00385 P450 superfamily signature 267 284 3.6E-12
9 g4589.t3 PRINTS PR00463 E-class P450 group I signature 276 302 1.2E-18
13 g4589.t3 PRINTS PR00385 P450 superfamily signature 321 332 3.6E-12
11 g4589.t3 PRINTS PR00463 E-class P450 group I signature 362 386 1.2E-18
10 g4589.t3 PRINTS PR00463 E-class P450 group I signature 397 407 1.2E-18
12 g4589.t3 PRINTS PR00385 P450 superfamily signature 398 407 3.6E-12
7 g4589.t3 PRINTS PR00463 E-class P450 group I signature 407 430 1.2E-18
15 g4589.t3 PRINTS PR00385 P450 superfamily signature 407 418 3.6E-12
2 g4589.t3 Pfam PF00067 Cytochrome P450 51 204 2.6E-23
1 g4589.t3 Pfam PF00067 Cytochrome P450 213 459 7.6E-69
19 g4589.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
20 g4589.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
18 g4589.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 463 -
23 g4589.t3 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 400 409 -
16 g4589.t3 SUPERFAMILY SSF48264 Cytochrome P450 25 462 5.5E-106
22 g4589.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -
21 g4589.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 72 91 -

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