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_4 g15556 g15556.t1 TSS g15556.t1 5843654 5843654
chr_4 g15556 g15556.t1 isoform g15556.t1 5843889 5845646
chr_4 g15556 g15556.t1 exon g15556.t1.exon1 5843889 5844100
chr_4 g15556 g15556.t1 cds g15556.t1.CDS1 5843889 5844100
chr_4 g15556 g15556.t1 exon g15556.t1.exon2 5844213 5845413
chr_4 g15556 g15556.t1 cds g15556.t1.CDS2 5844213 5845413
chr_4 g15556 g15556.t1 exon g15556.t1.exon3 5845473 5845646
chr_4 g15556 g15556.t1 cds g15556.t1.CDS3 5845473 5845646
chr_4 g15556 g15556.t1 TTS g15556.t1 NA NA

Sequences

>g15556.t1 Gene=g15556 Length=1587
ATGAGTATCACATTGATTTTTATTTGGATTTTAATCTTTTTATTTTGGTTTGTTTATCGA
AAGTACAAAAAGAATTTCGATGAATTTGAAAGTTATGGTTTGAAATATATGAAGCCATGG
GAAGGAGTTGGAAGTTTTTTCAAAATTATGCTACTTAAAATAACTATGTTTGATGCTGTA
GAAGATTTTTATAGAAAATTTTCTGGCCAAAAAGTCGCTCCAGCATTGTCAATTCTTAAT
CAGCGAGTTTTCTTAATCCGTGATCCAACAATCATCAAGCAAATAGCAATAAAAGATTTC
GATCATTTCGTCAATCATGACAAAACAGTCGATGAAAATCTTGATCCAGTCATTGGAAAA
AATCTCTTCACATTACGTGATGAAAGTTGGCGGAAAATGCGAAATAGTCTTAGTCCTATT
TTTACAAGCAGTAAAATGAAAATGATGTTTGGAATTCTTTCAGAAACAGCCGACGATTTT
GTTGATTTTTGCAATGAAAAACTTGAAAGTGAAGGAAAAATTGAAATTGATTGTAAGAGC
ATTTTTGTACGTTTTGCAGTTGATGGAATAAGCACAGCAGTTTTAGGTTTCAAAGCAGAT
TGTTTAAGAAATGAAAAAAGTCAGGTTTATGAGATGGTTCAAAAAATTATCAAACCACCA
AGTTCTGGAATTTTTAAAATTTTAATTTTTGTCTTTGCCAAATGGCTCTACAAACTACTC
AAGTTAAAAGTTCTTCCACCAGATGTTTATGAATTTTTCAAAGCAGCAATTGTAAACGTC
ATGAAAGAGAGAGAAGAAAAAGGAATTTTTAGACCTGACGTAATCGAACTGTTAATGCGA
GCTAAACGTGGACAATTAGCAGCTGCAGATAAAAATAATGAAGTCAATGAAGCTGAGTTG
TCGAATTTTTCAGCAAATCCTGAATATGAAGTGAAATCGAAAAATTCAATTATTTGGACT
GATGATCATTTCATTGCACAAGGTCATCTATTTTTCTCTGCTGGTCTCGCAACTTCATCA
GTTGTTCTTGAAACAGTTGCTTACTATCTTGCAGTGAATAAAAATTATCAAAATGAAATA
ATCAAAGAAGTCGATGCAGTTGAAAATCCAACTTATGAAGCAATTCATAAAATGAAATTT
CTTGACATGTTTATCAGTGAAGTTTTGAGACTTTGGGCTTCACCATTTTTGAATAGAGAA
TGTAATAAGGATTATAAAATGGATTTTGGTGATGGAATTGTTATAAATGTAAAAAATGGC
GATTTTGTTCAATTTCCTGTTTGGTCAATTCATCATGATGAAAAATATTTTCCAAATCCA
GAAGTTTTTGATCCTTATCGATTTAGTGATGAAAGAAAAGGAGAAATTTTGAATTATTAT
ATGCCATTCGGTATTGGACCAAGAATTTGTATTGCTTCACGTTTTGCATTGATGGAAGTA
AAAGTGCTAATTTTTAAAATTTTATCAAAGTTTACTTTTGAAGCATGTGAAAAAACACCA
AAGAAATTGAAAGCAAAACCAAGTTTAACAGAATTTCAATTTACCGAAGATATTATTGTC
GAATTGAAACCAAGGGATGGAAAATAA

>g15556.t1 Gene=g15556 Length=528
MSITLIFIWILIFLFWFVYRKYKKNFDEFESYGLKYMKPWEGVGSFFKIMLLKITMFDAV
EDFYRKFSGQKVAPALSILNQRVFLIRDPTIIKQIAIKDFDHFVNHDKTVDENLDPVIGK
NLFTLRDESWRKMRNSLSPIFTSSKMKMMFGILSETADDFVDFCNEKLESEGKIEIDCKS
IFVRFAVDGISTAVLGFKADCLRNEKSQVYEMVQKIIKPPSSGIFKILIFVFAKWLYKLL
KLKVLPPDVYEFFKAAIVNVMKEREEKGIFRPDVIELLMRAKRGQLAAADKNNEVNEAEL
SNFSANPEYEVKSKNSIIWTDDHFIAQGHLFFSAGLATSSVVLETVAYYLAVNKNYQNEI
IKEVDAVENPTYEAIHKMKFLDMFISEVLRLWASPFLNRECNKDYKMDFGDGIVINVKNG
DFVQFPVWSIHHDEKYFPNPEVFDPYRFSDERKGEILNYYMPFGIGPRICIASRFALMEV
KVLIFKILSKFTFEACEKTPKKLKAKPSLTEFQFTEDIIVELKPRDGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15556.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 528 9.5E-102
2 g15556.t1 PANTHER PTHR24292 CYTOCHROME P450 7 509 1.2E-127
6 g15556.t1 PRINTS PR00385 P450 superfamily signature 334 351 3.2E-7
10 g15556.t1 PRINTS PR00465 E-class P450 group IV signature 378 394 2.7E-14
3 g15556.t1 PRINTS PR00385 P450 superfamily signature 383 394 3.2E-7
7 g15556.t1 PRINTS PR00465 E-class P450 group IV signature 431 449 2.7E-14
9 g15556.t1 PRINTS PR00465 E-class P450 group IV signature 454 470 2.7E-14
4 g15556.t1 PRINTS PR00385 P450 superfamily signature 461 470 3.2E-7
5 g15556.t1 PRINTS PR00385 P450 superfamily signature 470 481 3.2E-7
8 g15556.t1 PRINTS PR00465 E-class P450 group IV signature 470 488 2.7E-14
1 g15556.t1 Pfam PF00067 Cytochrome P450 43 507 2.5E-67
14 g15556.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
15 g15556.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
16 g15556.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
17 g15556.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
13 g15556.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 528 -
19 g15556.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 463 472 -
11 g15556.t1 SUPERFAMILY SSF48264 Cytochrome P450 38 525 2.23E-85
18 g15556.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 19 -

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