Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 9e2.

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_1 g13580 g13580.t21 TSS g13580.t21 31040681 31040681
chr_1 g13580 g13580.t21 isoform g13580.t21 31041192 31042954
chr_1 g13580 g13580.t21 exon g13580.t21.exon1 31041192 31041391
chr_1 g13580 g13580.t21 cds g13580.t21.CDS1 31041202 31041391
chr_1 g13580 g13580.t21 exon g13580.t21.exon2 31041615 31041781
chr_1 g13580 g13580.t21 cds g13580.t21.CDS2 31041615 31041781
chr_1 g13580 g13580.t21 exon g13580.t21.exon3 31041837 31042235
chr_1 g13580 g13580.t21 cds g13580.t21.CDS3 31041837 31042235
chr_1 g13580 g13580.t21 exon g13580.t21.exon4 31042300 31042714
chr_1 g13580 g13580.t21 cds g13580.t21.CDS4 31042300 31042714
chr_1 g13580 g13580.t21 exon g13580.t21.exon5 31042767 31042954
chr_1 g13580 g13580.t21 cds g13580.t21.CDS5 31042767 31042954
chr_1 g13580 g13580.t21 TTS g13580.t21 31043048 31043048

Sequences

>g13580.t21 Gene=g13580 Length=1369
AGTATCAGGAATGTTTGAATTTAATCACCCGGCATTTTTCATTCGTGACCCTGAACTCAT
TAAAAAATTGGCAGTTAAAGAATTTGATTCATTTATGGATCATCGTCTTGTTTTATCAGA
AGATGCAGAACCATTATTCGCCAAAGCTCTTTTTGGTTTGACTGGTCAAAAATGGAAAGG
TAAAAAAAATATTTCATTATGCTCGAAGATGCGCTTAATGTTCAAATTGATGAATGAAGT
GGGATCGAAAATGTCGAAGACTGTTTGTGATAAAATCAATAAAGGCGCAGACAATAAAGT
TGAATTTAAAGAGTTCTCGAGAAAATTCACGATTGATATAATAGCAACTTGTGCATTTGG
CATTGAAGTTAATTCATTTGAAAATGCAAATAATGACTTCATGAGAATTGCAACAAAAGC
TACAAACTTTAATTCTTCAGGAATGCTTCTTAAATTGATTGGATTTTTTGGATTTCCATG
GTTGATGAGTCGATTAAGAGTAAAATTTTTAGATAGTGAACTTTACGACTTTTTCGATAA
TGTCATTACTGAAACAATTAACACAAGAGAACGAAAAGAAATTACTCGAAATGACATGAT
TGATTTACTTTTGCAAGCAAAACATGGAAAGCTTGAATATCAAGAAGAAAAATCATCATC
TGATGGATTTGCTACTGTTGAAGAATCACAAATTGGAAAACAAAAAGTCAAAACTGTCTG
GAGCAACCAAGACTTGATGGCTCAATGTTTTATCTTCTTCTTTGCTGGTTTCGAAACAGT
TTCAAATGTGATGACCTTTATGGCATATGAACTCATTCTCAATCCTGATATTCAAAAGAA
ATTGCAAGATGAAATTGATGCAATGAATGCTGAACTCAAAGGAGGTGATTTGACTTATGA
AGATGTTCAGAAACTAAAATATATGGATATGGTACTTTGTGAAACTTTGAGAATGTGGCC
ACCAGCTCCTATCATTGATAGAATGTGTACAAAAGATTTTCTCTTGGAATATGACAACAA
AAAAGTTCAAATTGAAGTTGGCAGAAATTTCTATATTCCTGTCTATTCTTTGCATCATAA
CGAAAACTACTTTCCAAATCCGAATAGATTTGATCCAGAACGTTTCAGTGATGAAAACAA
GAAAAACATCAGACAGGATTGTTATTTACCTTTTGGAATTGGTCCAAGGAATTGCATCGG
AAATCGTTTCGCTTTACTTGAAGTCAAGACAATCTTCTATTATCTTCTTTTGAATTTTAA
TTTTGAAGCAACAAAGGACACACAAATTCCAATTAAATTGGCAAACAATCAAGCTACTTT
CCAATTCGAGAAGGGCTTGCATTGCGCATTAGTTCCAAGAACAAAATAA

>g13580.t21 Gene=g13580 Length=452
MFEFNHPAFFIRDPELIKKLAVKEFDSFMDHRLVLSEDAEPLFAKALFGLTGQKWKGKKN
ISLCSKMRLMFKLMNEVGSKMSKTVCDKINKGADNKVEFKEFSRKFTIDIIATCAFGIEV
NSFENANNDFMRIATKATNFNSSGMLLKLIGFFGFPWLMSRLRVKFLDSELYDFFDNVIT
ETINTRERKEITRNDMIDLLLQAKHGKLEYQEEKSSSDGFATVEESQIGKQKVKTVWSNQ
DLMAQCFIFFFAGFETVSNVMTFMAYELILNPDIQKKLQDEIDAMNAELKGGDLTYEDVQ
KLKYMDMVLCETLRMWPPAPIIDRMCTKDFLLEYDNKKVQIEVGRNFYIPVYSLHHNENY
FPNPNRFDPERFSDENKKNIRQDCYLPFGIGPRNCIGNRFALLEVKTIFYYLLLNFNFEA
TKDTQIPIKLANNQATFQFEKGLHCALVPRTK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g13580.t21 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 452 2.8E-114
2 g13580.t21 PANTHER PTHR24292 CYTOCHROME P450 1 435 2.7E-167
3 g13580.t21 PANTHER PTHR24292:SF90 CYTOCHROME P450 317A1-RELATED 1 435 2.7E-167
7 g13580.t21 PRINTS PR00463 E-class P450 group I signature 241 258 5.0E-22
10 g13580.t21 PRINTS PR00385 P450 superfamily signature 252 269 3.8E-11
6 g13580.t21 PRINTS PR00463 E-class P450 group I signature 261 287 5.0E-22
12 g13580.t21 PRINTS PR00385 P450 superfamily signature 307 318 3.8E-11
5 g13580.t21 PRINTS PR00463 E-class P450 group I signature 350 374 5.0E-22
4 g13580.t21 PRINTS PR00463 E-class P450 group I signature 385 395 5.0E-22
9 g13580.t21 PRINTS PR00385 P450 superfamily signature 386 395 3.8E-11
8 g13580.t21 PRINTS PR00463 E-class P450 group I signature 395 418 5.0E-22
11 g13580.t21 PRINTS PR00385 P450 superfamily signature 395 406 3.8E-11
1 g13580.t21 Pfam PF00067 Cytochrome P450 5 436 1.3E-75
17 g13580.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 139 -
20 g13580.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 159 -
18 g13580.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 160 241 -
19 g13580.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 242 269 -
16 g13580.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 270 452 -
14 g13580.t21 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 388 397 -
13 g13580.t21 SUPERFAMILY SSF48264 Cytochrome P450 4 450 7.47E-100

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