Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4d10.

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 g12530 g12530.t1 TTS g12530.t1 24268524 24268524
chr_1 g12530 g12530.t1 isoform g12530.t1 24268592 24271106
chr_1 g12530 g12530.t1 exon g12530.t1.exon1 24268592 24268754
chr_1 g12530 g12530.t1 cds g12530.t1.CDS1 24268592 24268754
chr_1 g12530 g12530.t1 exon g12530.t1.exon2 24268810 24269523
chr_1 g12530 g12530.t1 cds g12530.t1.CDS2 24268810 24269523
chr_1 g12530 g12530.t1 exon g12530.t1.exon3 24270426 24270492
chr_1 g12530 g12530.t1 cds g12530.t1.CDS3 24270426 24270492
chr_1 g12530 g12530.t1 exon g12530.t1.exon4 24270560 24271106
chr_1 g12530 g12530.t1 cds g12530.t1.CDS4 24270560 24271106
chr_1 g12530 g12530.t1 TSS g12530.t1 24271137 24271137

Sequences

>g12530.t1 Gene=g12530 Length=1491
ATGTTTCTCTTTACAATTTTGTCAATTTTAATTATTGCTTTAATATCATGGTATAAAAAG
CATTTTAGGCGGCGTGATTATTTATATTCAAAAATTCCTCATCCATATCATATACCGCTT
CTACATCATAGCCTTGAATTCATCGGCAAAACGCCTAAAGAGCTATTTGATTGGATGGAA
GACATGAGCAATGAACTTGGCAACGTATATTTCTTTTCTACGGGTATTTTTGGTAGTGGT
TTTGCAGTAATTTCTGATGTAAAAATTGTAGAAGCATTGCTGTCAAGTCAAGTACAATTG
GATAAGACAATCGATTATAATTATTTAATAGATTGGATTGGAACAGGCTTACTTATTTCA
AATTCAAAGAAATGGTTTACTAGAAGAAAACTTTTGACACCAGGATTTCATTTTAAAATT
TTAGAGAGATTTGTAGAAATTCAAAATAATCAAGCAAATGTTTTCGTGAATATACTTCAA
GAATATGATGGGAAAGAAGTTGATATTTTTCCACTTGCTAGTTTATATGCACTTGATACC
GTATGTGAAGCGGCAATGGGAATTAATATTCATGCGCAAACAAAACAATCGGATTATCTA
AAAGCAGTACAAGAAATCACAAGGATCATCACAATAAAATCATTTGATACAACAAAGCAA
ATTGAATTTCTGTATCGCTTTACAGAAATGTATCGCAGAGAAAAGAAATTAATTGAAGAA
TTGCATGCGTTCACTGACAAAATTATTCAATCGCGTAGAGAAGAATTACTGATGCACAAT
GAAGAAACGTCAGAGCAAAATGATGAGATCGGAACAAAAAAGAAGAAAGCTCTTTTGGAT
ATTTTGTTGAGTTCAAGAGTTGAAGGAGAGCCATTAAAAAATTCCGATATTCGAGAAGAA
GTTGATACATTCATGTTTGCCGGTCATGACACCTCTAAAAGTGGTATTTGTTTTGTATTT
TATTGCATTGCTAAGTATCCAGAAGTTCAACAAAAGGTTTATGAGGAAATAATTGAAGTG
CTTGGTGATGAAGAGGAAATAAATTTACAAAAATTGAATGAACTGCACTATCTAGAATTG
GTGATTCGTGAGTCATTAAGACTTTTTCCACCTGTACCTTATTATGGACGACAATTAGTA
GAAGAGTTAATTACTGAAAAATATACTTTTCCAAAAGGAATGAATGTGTATGTGTCTCCT
TATTTGATGGGAAGAGATGAAAGGATTTTTCCTGAACCAAAAAAATTTGATCCGCACCGT
TTTGAAGTAGAAATGGCTAATGATAAAATTAATCCCTTTTCGTATGTGCCTTTTTCAGCT
GGTCCAAGAAATTGTATTGGCCAAAAATTTGCACAATATGAAATGAGAATGATCGCTGCA
AAAGTTTTAAGAAAATTTAAATTATCTATTGCTAGTGAAATCACTATCCTATCAGAATTA
GTCTTGAGACCGGAAAATGGAGTAAACTTGAAAATCGAGAAGAGAAAATAA

>g12530.t1 Gene=g12530 Length=496
MFLFTILSILIIALISWYKKHFRRRDYLYSKIPHPYHIPLLHHSLEFIGKTPKELFDWME
DMSNELGNVYFFSTGIFGSGFAVISDVKIVEALLSSQVQLDKTIDYNYLIDWIGTGLLIS
NSKKWFTRRKLLTPGFHFKILERFVEIQNNQANVFVNILQEYDGKEVDIFPLASLYALDT
VCEAAMGINIHAQTKQSDYLKAVQEITRIITIKSFDTTKQIEFLYRFTEMYRREKKLIEE
LHAFTDKIIQSRREELLMHNEETSEQNDEIGTKKKKALLDILLSSRVEGEPLKNSDIREE
VDTFMFAGHDTSKSGICFVFYCIAKYPEVQQKVYEEIIEVLGDEEEINLQKLNELHYLEL
VIRESLRLFPPVPYYGRQLVEELITEKYTFPKGMNVYVSPYLMGRDERIFPEPKKFDPHR
FEVEMANDKINPFSYVPFSAGPRNCIGQKFAQYEMRMIAAKVLRKFKLSIASEITILSEL
VLRPENGVNLKIEKRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g12530.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 496 8.0E-113
2 g12530.t1 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 8 495 5.2E-144
3 g12530.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 8 495 5.2E-144
4 g12530.t1 PRINTS PR00463 E-class P450 group I signature 296 313 1.3E-20
13 g12530.t1 PRINTS PR00385 P450 superfamily signature 307 324 1.6E-10
7 g12530.t1 PRINTS PR00463 E-class P450 group I signature 316 342 1.3E-20
9 g12530.t1 PRINTS PR00463 E-class P450 group I signature 359 377 1.3E-20
12 g12530.t1 PRINTS PR00385 P450 superfamily signature 360 371 1.6E-10
6 g12530.t1 PRINTS PR00463 E-class P450 group I signature 399 423 1.3E-20
5 g12530.t1 PRINTS PR00463 E-class P450 group I signature 435 445 1.3E-20
11 g12530.t1 PRINTS PR00385 P450 superfamily signature 436 445 1.6E-10
8 g12530.t1 PRINTS PR00463 E-class P450 group I signature 445 468 1.3E-20
10 g12530.t1 PRINTS PR00385 P450 superfamily signature 445 456 1.6E-10
1 g12530.t1 Pfam PF00067 Cytochrome P450 33 486 1.9E-103
18 g12530.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 16 -
19 g12530.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
20 g12530.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 12 -
21 g12530.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 16 -
17 g12530.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 17 496 -
15 g12530.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 438 447 -
14 g12530.t1 SUPERFAMILY SSF48264 Cytochrome P450 32 495 1.19E-108

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 transcript belongs to the following 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.

Raw TPM values