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.t1 TTS g4589.t1 3351404 3351404
chr_2 g4589 g4589.t1 isoform g4589.t1 3351505 3353091
chr_2 g4589 g4589.t1 exon g4589.t1.exon1 3351505 3351681
chr_2 g4589 g4589.t1 cds g4589.t1.CDS1 3351505 3351681
chr_2 g4589 g4589.t1 exon g4589.t1.exon2 3351737 3351978
chr_2 g4589 g4589.t1 cds g4589.t1.CDS2 3351737 3351978
chr_2 g4589 g4589.t1 exon g4589.t1.exon3 3352032 3353091
chr_2 g4589 g4589.t1 cds g4589.t1.CDS3 3352032 3353091
chr_2 g4589 g4589.t1 TSS g4589.t1 3353129 3353129

Sequences

>g4589.t1 Gene=g4589 Length=1479
ATGGAGCTAACAACGCTTCTTTTTACAATTTTTACCGGAATTTCGTTATTTATTTACTAT
TTTATACATCGTCGTTTAAATTATTGGAAGGTCAGAAATGTACCACACATTGAACCAGAA
TTTTTCCATGGAAACGCTCGTGGTGTCGGCAAAACAATATCTCCTGGTAAATTTTTCAAG
GACATGTACTTTAAACTAAAGAATAAAGGTCCAGTAGTTGGCGTATACATGTATGTAGAA
CCAATGGCAATAATAATGGATTTAGATTTAGTGAAAACAATTCTCGTGAAAGAATTTAAT
ACTTTTCCAAATCGTGGACTTTATCATAATGAAAAAGATGATCCAACAAGTGCAAATTTA
GCATCAATTGAAGATGAACAGTGGAAAATTTTAAGAAATAAAATATCACCAACATTCTCC
AGTGGAAAAATTAAAAACATGTTTCCAATAGTAGGTGAAGTAGCTGATAAAATGATTGAA
CGTATTGAAATTGATAGCAAAGAGAAAGGCTCGATTGAAGTGAAAGATATTTTAGCGAGA
TTTACAACAGATGTGATTGGAAGAGTTGGATTTGGAATAGAGTGCAATAGTTTAGATGAT
AACACAACAAAATTCTATCAAATTGGTTTAAAAGCGTTCAGTAATATAAATTTTTTCACA
AGAACTTTGACATCATCTTATCCAGATTTAGCAAGAAAATTACACATTAAAACATCTGAT
CCAGAAGTTGCTGGCTTTTATAAAGATATTGTTGAGCAAACAATCAAATATCGTATAGAT
AATAATATTCAGAGCAATGACTTTATGTCACTTTTAATGAAGATGATGAAAGATAACTCT
TTGACCTTTAATGAAGTCTGGTCACAATCAGTAGTTTTCTTTCTAGCTGGTTATGAAACA
AGTTCTACAGCTTTAAATTATTGTTTATATGAAATGTCTCAAAGAAAAGACATTTGTGAT
AAAGCAAGAGAATCAGTGAAAAAAGCATTAGAAAAACATAACGGAGAATTAAATTATGAT
GCTGTCAATGACATGCAATATATTGAACAATGTGTTAATGAGGCTTTAAGAAAACATCCG
CCAGCTAATGCTACAAGAAGAATTCCAAGAGAAGATTTTCAAGTGCCAAATAGTAAAATT
GTGATTGAAAAAGGAGTTCATGTAATTATTCCAGTTTGGGGAATCCATTTCGATCCAGAA
ATCTATCCAGAACCAGAAACTTATAATCCAGACAGATTTACTCCTGAAGAAGTAGCTAAA
AGACATAACATGAGCTTTCTACCATTCGGTGAAGGCCCAAGAGTTTGCATTGGTGAAAGA
TTTGCTATGGTCGAAATTAAATTAGCTTTAGCAAAAATTCTCATGAATTTTGAATTTGAG
CTTGACTACTCAAAAACTCCAGTTCCAATGCCTTATGAAACCAAGAGACTAATTTTGACG
GCAGCTAAAGGAGTTTTTATAAAATTTAGGAAAATTTAA

>g4589.t1 Gene=g4589 Length=492
MELTTLLFTIFTGISLFIYYFIHRRLNYWKVRNVPHIEPEFFHGNARGVGKTISPGKFFK
DMYFKLKNKGPVVGVYMYVEPMAIIMDLDLVKTILVKEFNTFPNRGLYHNEKDDPTSANL
ASIEDEQWKILRNKISPTFSSGKIKNMFPIVGEVADKMIERIEIDSKEKGSIEVKDILAR
FTTDVIGRVGFGIECNSLDDNTTKFYQIGLKAFSNINFFTRTLTSSYPDLARKLHIKTSD
PEVAGFYKDIVEQTIKYRIDNNIQSNDFMSLLMKMMKDNSLTFNEVWSQSVVFFLAGYET
SSTALNYCLYEMSQRKDICDKARESVKKALEKHNGELNYDAVNDMQYIEQCVNEALRKHP
PANATRRIPREDFQVPNSKIVIEKGVHVIIPVWGIHFDPEIYPEPETYNPDRFTPEEVAK
RHNMSFLPFGEGPRVCIGERFAMVEIKLALAKILMNFEFELDYSKTPVPMPYETKRLILT
AAKGVFIKFRKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4589.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 492 1.2E-127
2 g4589.t1 PANTHER PTHR24292 CYTOCHROME P450 7 492 7.3E-167
3 g4589.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 7 492 7.3E-167
6 g4589.t1 PRINTS PR00463 E-class P450 group I signature 66 85 1.7E-22
9 g4589.t1 PRINTS PR00463 E-class P450 group I signature 90 111 1.7E-22
10 g4589.t1 PRINTS PR00463 E-class P450 group I signature 285 302 1.7E-22
11 g4589.t1 PRINTS PR00385 P450 superfamily signature 296 313 4.4E-12
5 g4589.t1 PRINTS PR00463 E-class P450 group I signature 305 331 1.7E-22
14 g4589.t1 PRINTS PR00385 P450 superfamily signature 350 361 4.4E-12
7 g4589.t1 PRINTS PR00463 E-class P450 group I signature 391 415 1.7E-22
8 g4589.t1 PRINTS PR00463 E-class P450 group I signature 426 436 1.7E-22
13 g4589.t1 PRINTS PR00385 P450 superfamily signature 427 436 4.4E-12
4 g4589.t1 PRINTS PR00463 E-class P450 group I signature 436 459 1.7E-22
12 g4589.t1 PRINTS PR00385 P450 superfamily signature 436 447 4.4E-12
1 g4589.t1 Pfam PF00067 Cytochrome P450 51 488 3.2E-97
18 g4589.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
19 g4589.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
17 g4589.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 492 -
22 g4589.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 429 438 -
15 g4589.t1 SUPERFAMILY SSF48264 Cytochrome P450 41 490 1.7E-108
21 g4589.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -
20 g4589.t1 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

Pathway

This gene does not belong to any pathways.

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