Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Cytochrome P450 9c1.

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 g17163 g17163.t7 TTS g17163.t7 12688267 12688267
chr_4 g17163 g17163.t7 isoform g17163.t7 12688307 12690335
chr_4 g17163 g17163.t7 exon g17163.t7.exon1 12688307 12688492
chr_4 g17163 g17163.t7 exon g17163.t7.exon2 12688542 12688944
chr_4 g17163 g17163.t7 cds g17163.t7.CDS1 12688909 12688944
chr_4 g17163 g17163.t7 exon g17163.t7.exon3 12689295 12690072
chr_4 g17163 g17163.t7 cds g17163.t7.CDS2 12689295 12690072
chr_4 g17163 g17163.t7 exon g17163.t7.exon4 12690124 12690335
chr_4 g17163 g17163.t7 cds g17163.t7.CDS3 12690124 12690335
chr_4 g17163 g17163.t7 TSS g17163.t7 12690401 12690401

Sequences

>g17163.t7 Gene=g17163 Length=1579
ATGGACACTTATTTATTAATCATTTGGGCTGTCATTTTTCTTGGATATTTCATTTACAAA
AAAGCAACAAAAAATTTAAAATTTTTTGAAAAGCATGGAATTCCATATGAAAAACCACTG
CCATTTTTCGGCAATTCATTAAAACTTTTAATGAAAAAGGAAAATATGATTGAATCTATT
GTGAATCCATATGAAAAATTCAAAAATAGTTTTGTTTATGGAGTTTTTGGAATGAACATT
CCCAATTTTGTTATCAGTGATCCAGAATTGATAAAACAAATAACAATTAAAGATTTTGAT
AGCTTTGTCAATCATGATAAGAGCTTTAATGAAGATGTCGATAAATTTTCAAGCAAAATG
TTGTTTACATTGGTAGACGAGAAATGGCGGCATATGAGGACAGTTTTAAGTCCAATTTTT
ACAAGTTCCAAAATGAAAATGATGTTTGGAATTTTATCAGAATGTGCAAATGAATTTGTT
GAACATCATGAAGAAAAAGCTAAGCATGGAAAAGTCATTGTAAATTGTGTTGAAACTTAT
CCACGTTACACTGTTGATGGAATTTCTACTGCTGTTCTTGGATTTAAAGGTGACTGCATT
AAAAATGAAGACAGCAAGCTCTATAAATTTGCAATGCGAATGAGAAAGCCAACATTTATA
ACAAACATAAAAATTATGATTTTTCTTATATCTCGTTGGTTTTATGTCAAACTTGGCTTA
CAAATGACATTGAAAGAAGTTTATGATTTTTTCTATAATGCAATCATTAAAGTCATGAAT
GAACGAGAAGAAAAAGGAATTTTTCGACCTGATGTTGTGCAATTGCTGCTTCAAGCAAGA
CAAGGACAATTGCAAAAAGAAAGTGACATCAATGAAAAAGAATTGTCAAACTTTTCTGCT
AATATTGAATATGATACTGGTGCTCAAAATAAGAAGATAACAAATTGGACCGATGAACAT
TATATGGCTCAGGGATTTTTATTCTTTGCAGCTTCAAATAACCAGTTATTGTTTAGCAAA
AAATAAAGAAGTTCAAGATGAATTAATAAGAGAAATTGATGATGTTCTTCAAGAACTTGA
TGCAAAGCCAATCACATATGAAGCACTGCATAAAATGAAATATTTGGATATGGTAATTTC
TGAAGCATTAAGAATTTGGCCACCAGCATTTGCAACATCAAGACAATGTAATAAAGATTA
TGATTTAAAATTAAAAGATGGAAAAGTCATTAAAATTAAGGATGGTGATCTCATTTTGAT
ACCAACATATGCAATTCATCATGATGAAAGATTTTTCACTAATCCAGAAAAATTTGATCC
ACTTCGATTTAGTGATGAAAATAAAGAATCTATTGCTGTTGGGTCATATATACCTTTTGG
ATTAGGTCCAAGAGCTTGTATTGGAAGTCGTTTTGCATTAATGGAAGCAAAATTGCTCAT
TTTTAATGTTATGAGCAAATTCACAATGGAAGTTTGTGATAAAACAACAGAAAAGCTTGA
ATTGGTTCCATCAATGACAGAAGTTACTTTTAAAAATGGAATTTTTGTTGAATATCGTCC
ACGAAAGAAGAACAACTAG

>g17163.t7 Gene=g17163 Length=341
MDTYLLIIWAVIFLGYFIYKKATKNLKFFEKHGIPYEKPLPFFGNSLKLLMKKENMIESI
VNPYEKFKNSFVYGVFGMNIPNFVISDPELIKQITIKDFDSFVNHDKSFNEDVDKFSSKM
LFTLVDEKWRHMRTVLSPIFTSSKMKMMFGILSECANEFVEHHEEKAKHGKVIVNCVETY
PRYTVDGISTAVLGFKGDCIKNEDSKLYKFAMRMRKPTFITNIKIMIFLISRWFYVKLGL
QMTLKEVYDFFYNAIIKVMNEREEKGIFRPDVVQLLLQARQGQLQKESDINEKELSNFSA
NIEYDTGAQNKKITNWTDEHYMAQGFLFFAASNNQLLFSKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g17163.t7 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 333 1.3E-47
2 g17163.t7 PANTHER PTHR24292 CYTOCHROME P450 7 332 2.8E-65
4 g17163.t7 PRINTS PR00464 Group II E-class P450 signature 126 146 2.3E-5
3 g17163.t7 PRINTS PR00464 Group II E-class P450 signature 182 200 2.3E-5
1 g17163.t7 Pfam PF00067 Cytochrome P450 35 296 3.8E-20
11 g17163.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
13 g17163.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
9 g17163.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 218 -
12 g17163.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 219 236 -
10 g17163.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 237 341 -
7 g17163.t7 SUPERFAMILY SSF48264 Cytochrome P450 34 329 6.68E-37
6 g17163.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 19 -
5 g17163.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 219 236 -

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