Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4c21.

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 g12352 g12352.t1 TSS g12352.t1 22747596 22747596
chr_1 g12352 g12352.t1 isoform g12352.t1 22747656 22750197
chr_1 g12352 g12352.t1 exon g12352.t1.exon1 22747656 22747812
chr_1 g12352 g12352.t1 cds g12352.t1.CDS1 22747656 22747812
chr_1 g12352 g12352.t1 exon g12352.t1.exon2 22747878 22748334
chr_1 g12352 g12352.t1 cds g12352.t1.CDS2 22747878 22748334
chr_1 g12352 g12352.t1 exon g12352.t1.exon3 22749321 22750197
chr_1 g12352 g12352.t1 cds g12352.t1.CDS3 22749321 22750197
chr_1 g12352 g12352.t1 TTS g12352.t1 NA NA

Sequences

>g12352.t1 Gene=g12352 Length=1491
ATGGGACTAATTTTACCGTTACTTGGTTTTATTGCACTTTTTACCTTCATTTATGCACTT
ATTGATGCATATCCTAAAATTAAACTTGATATTCCATCGCCACCATCAATTCCGATTATT
GGTCATTTACATAAGGTGATTGGACTTAATACTGAAGATCAACTAAAATTGGCACAAGAA
TATGCAAGTGGTCAAGTAAAATTAATGAAATTTTGGTTCTTTAATATCATGGCAATTGCA
CCAGGCACACCTGAAATGTTTCAAAGAATTCTCAATGCGGAAGAATGTATGGAGAAGCCA
TTTATCGCCTATCGACTACTCGCACTAAACAATGGCTTACTTGCGTCTCGATTTCATCGT
TGGCAACGTGATCGAAAATTTTTCAACAATTCATTCAAAATGTCAACTCTACAAAGTTTC
TTACCAATTTTTAACGAAGCTGCAGAACGAATTTGTGATGATATGCGTGTGAATTTGAAT
GGCGAGTCTTTTAATATTTCGCCTGCTATTTTCAAGTGCAGTCTTAAAATGATTTGCTCA
ACATCACTTGGCATGAGAATCAATGATGCTGAAAATGCTGAGACTTTTGATAAAATTTAT
CATGCGGTTAATTATGTAATCGAATCGATAGCATCACTGCAAAACAAACCAGTAATCTAC
CCAGAAACTCTTTATCTTCTCACTCCAAGATTTTGGAAGCATCTCAAATCAGCTCTCTAT
CTTAAAAACTTCCATCATCGAATCATTAATGAACGTCGAAATATTCTTGAGAAAACTGAT
GAGAACAAAAATGAAGAAGAATTGCCATCTTATGACATTTTCATTGATCAAATTCTCAAA
AATAAAGGACTTTTTACAGATCGTGAAATTTGGGAACATATTTTGACAATTTTGGCAGCT
GGTTATGAAACTTCAGCAACATGTCTTTCACATTGCATGCTTTTCTTAGCAATTTTTGAA
GAAATTCAACAAAAAGTTGTGGATGAAATTAATGAAATTTTTCCAACATCAGACACTGAA
ATTACTTTGGAAAATTTAGGAAAATTGCAGTATATGGAGCGAGTAATCAAAGAAACTTTA
AGAATTGCTCCAGTTGGTCCTGTTGTATTTCGTGAAACTCGAAAGCCTTTTGAAATTGAG
CCAGGACTTGTCATACCAAAAGGAGTTGTTTTTATTCTTCACATTTATTGCTTGCATCGT
GCAAAACGTTGGTGGGGCGAAAGAGCTGAAGAATTTGATCCAGATAATTTCTTGCCAGAG
CGAGTAGCTGAACGACATCCTGCGACTTTTATTCCATTTAGTTTCGGTAAAAGAAATTGC
ATTGGCTATCGTTATGCAATGCTTTCAATGAAGACAATTTTATTAAGAATGCTGCAGAGA
TATAAATTTAGTACACATTTGAAATATAAAGAATTGAGATTTAAATCAACTTTGACATTA
CAATTGATTGGGGAACATTTAGTCAAAATTGAAGAAAGAAAAAGTGAGTGA

>g12352.t1 Gene=g12352 Length=496
MGLILPLLGFIALFTFIYALIDAYPKIKLDIPSPPSIPIIGHLHKVIGLNTEDQLKLAQE
YASGQVKLMKFWFFNIMAIAPGTPEMFQRILNAEECMEKPFIAYRLLALNNGLLASRFHR
WQRDRKFFNNSFKMSTLQSFLPIFNEAAERICDDMRVNLNGESFNISPAIFKCSLKMICS
TSLGMRINDAENAETFDKIYHAVNYVIESIASLQNKPVIYPETLYLLTPRFWKHLKSALY
LKNFHHRIINERRNILEKTDENKNEEELPSYDIFIDQILKNKGLFTDREIWEHILTILAA
GYETSATCLSHCMLFLAIFEEIQQKVVDEINEIFPTSDTEITLENLGKLQYMERVIKETL
RIAPVGPVVFRETRKPFEIEPGLVIPKGVVFILHIYCLHRAKRWWGERAEEFDPDNFLPE
RVAERHPATFIPFSFGKRNCIGYRYAMLSMKTILLRMLQRYKFSTHLKYKELRFKSTLTL
QLIGEHLVKIEERKSE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g12352.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 16 496 3.7E-99
2 g12352.t1 PANTHER PTHR24291:SF105 CYTOCHROME P450 4P1-RELATED 14 493 1.0E-84
3 g12352.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 14 493 1.0E-84
5 g12352.t1 PRINTS PR00463 E-class P450 group I signature 289 306 1.9E-14
11 g12352.t1 PRINTS PR00385 P450 superfamily signature 300 317 9.5E-12
6 g12352.t1 PRINTS PR00463 E-class P450 group I signature 309 335 1.9E-14
8 g12352.t1 PRINTS PR00463 E-class P450 group I signature 353 371 1.9E-14
9 g12352.t1 PRINTS PR00385 P450 superfamily signature 354 365 9.5E-12
7 g12352.t1 PRINTS PR00463 E-class P450 group I signature 430 440 1.9E-14
10 g12352.t1 PRINTS PR00385 P450 superfamily signature 431 440 9.5E-12
4 g12352.t1 PRINTS PR00463 E-class P450 group I signature 440 463 1.9E-14
12 g12352.t1 PRINTS PR00385 P450 superfamily signature 440 451 9.5E-12
1 g12352.t1 Pfam PF00067 Cytochrome P450 32 477 6.6E-82
16 g12352.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
17 g12352.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
18 g12352.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
19 g12352.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
15 g12352.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 496 -
21 g12352.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 433 442 -
13 g12352.t1 SUPERFAMILY SSF48264 Cytochrome P450 31 493 3.8E-99
20 g12352.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -

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. There were no conditions that were differentially expressed