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.t4 TTS g4589.t4 3351404 3351404
chr_2 g4589 g4589.t4 isoform g4589.t4 3351505 3353091
chr_2 g4589 g4589.t4 exon g4589.t4.exon1 3351505 3351783
chr_2 g4589 g4589.t4 cds g4589.t4.CDS1 3351695 3351783
chr_2 g4589 g4589.t4 exon g4589.t4.exon2 3351853 3351978
chr_2 g4589 g4589.t4 cds g4589.t4.CDS2 3351853 3351978
chr_2 g4589 g4589.t4 exon g4589.t4.exon3 3352032 3353091
chr_2 g4589 g4589.t4 cds g4589.t4.CDS3 3352032 3353091
chr_2 g4589 g4589.t4 TSS g4589.t4 3353129 3353129

Sequences

>g4589.t4 Gene=g4589 Length=1465
ATGGAGCTAACAACGCTTCTTTTTACAATTTTTACCGGAATTTCGTTATTTATTTACTAT
TTTATACATCGTCGTTTAAATTATTGGAAGGTCAGAAATGTACCACACATTGAACCAGAA
TTTTTCCATGGAAACGCTCGTGGTGTCGGCAAAACAATATCTCCTGGTAAATTTTTCAAG
GACATGTACTTTAAACTAAAGAATAAAGGTCCAGTAGTTGGCGTATACATGTATGTAGAA
CCAATGGCAATAATAATGGATTTAGATTTAGTGAAAACAATTCTCGTGAAAGAATTTAAT
ACTTTTCCAAATCGTGGACTTTATCATAATGAAAAAGATGATCCAACAAGTGCAAATTTA
GCATCAATTGAAGATGAACAGTGGAAAATTTTAAGAAATAAAATATCACCAACATTCTCC
AGTGGAAAAATTAAAAACATGTTTCCAATAGTAGGTGAAGTAGCTGATAAAATGATTGAA
CGTATTGAAATTGATAGCAAAGAGAAAGGCTCGATTGAAGTGAAAGATATTTTAGCGAGA
TTTACAACAGATGTGATTGGAAGAGTTGGATTTGGAATAGAGTGCAATAGTTTAGATGAT
AACACAACAAAATTCTATCAAATTGGTTTAAAAGCGTTCAGTAATATAAATTTTTTCACA
AGAACTTTGACATCATCTTATCCAGATTTAGCAAGAAAATTACACATTAAAACATCTGAT
CCAGAAGTTGCTGGCTTTTATAAAGATATTGTTGAGCAAACAATCAAATATCGTATAGAT
AATAATATTCAGAGCAATGACTTTATGTCACTTTTAATGAAGATGATGAAAGATAACTCT
TTGACCTTTAATGAAGTCTGGTCACAATCAGTAGTTTTCTTTCTAGCTGGTTATGAAACA
AGTTCTACAGCTTTAAATTATTGTTTATATGAAATGTCTCAAAGAAAAGACATTTGTGAT
AAAGCAAGAGAATCAGTGAAAAAAGCATTAGAAAAACATAACGGAGAATTAAATTATGAT
GCTGTCAATGACATGCAATATATTGAACAATGTGTTAATGAGGCTTTAAGAAAACATCCG
CCAGCTAATGCTACAAGAAGAATTCCAAGAGAAGATTTTCAAGTGCCAAATAGTAAAATT
GTGATTGAAAAAGGAGTTCATGTAATTATTCCAGTTTGGGGAATCCCTAAAAGACATAAC
ATGAGCTTTCTACCATTCGGTGAAGGCCCAAGAGTAAGCTTTAAAAAACTTAAATCTATT
AATGATATTCATTGAACGTATTCTTTAGGTTTGCATTGGTGAAAGATTTGCTATGGTCGA
AATTAAATTAGCTTTAGCAAAAATTCTCATGAATTTTGAATTTGAGCTTGACTACTCAAA
AACTCCAGTTCCAATGCCTTATGAAACCAAGAGACTAATTTTGACGGCAGCTAAAGGAGT
TTTTATAAAATTTAGGAAAATTTAA

>g4589.t4 Gene=g4589 Length=424
MELTTLLFTIFTGISLFIYYFIHRRLNYWKVRNVPHIEPEFFHGNARGVGKTISPGKFFK
DMYFKLKNKGPVVGVYMYVEPMAIIMDLDLVKTILVKEFNTFPNRGLYHNEKDDPTSANL
ASIEDEQWKILRNKISPTFSSGKIKNMFPIVGEVADKMIERIEIDSKEKGSIEVKDILAR
FTTDVIGRVGFGIECNSLDDNTTKFYQIGLKAFSNINFFTRTLTSSYPDLARKLHIKTSD
PEVAGFYKDIVEQTIKYRIDNNIQSNDFMSLLMKMMKDNSLTFNEVWSQSVVFFLAGYET
SSTALNYCLYEMSQRKDICDKARESVKKALEKHNGELNYDAVNDMQYIEQCVNEALRKHP
PANATRRIPREDFQVPNSKIVIEKGVHVIIPVWGIPKRHNMSFLPFGEGPRVSFKKLKSI
NDIH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g4589.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 413 4.3E-91
2 g4589.t4 PANTHER PTHR24292 CYTOCHROME P450 7 412 7.2E-131
3 g4589.t4 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 7 412 7.2E-131
5 g4589.t4 PRINTS PR00464 Group II E-class P450 signature 125 145 1.7E-9
4 g4589.t4 PRINTS PR00464 Group II E-class P450 signature 180 198 1.7E-9
8 g4589.t4 PRINTS PR00385 P450 superfamily signature 296 313 2.8E-6
9 g4589.t4 PRINTS PR00385 P450 superfamily signature 350 361 2.8E-6
6 g4589.t4 PRINTS PR00464 Group II E-class P450 signature 385 400 1.7E-9
7 g4589.t4 PRINTS PR00385 P450 superfamily signature 404 413 2.8E-6
1 g4589.t4 Pfam PF00067 Cytochrome P450 51 398 1.1E-60
15 g4589.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
16 g4589.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
14 g4589.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 424 -
12 g4589.t4 SUPERFAMILY SSF48264 Cytochrome P450 25 412 3.54E-76
11 g4589.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 22 -
10 g4589.t4 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: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