Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4d1.

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.t7 TTS g12530.t7 24268524 24268524
chr_1 g12530 g12530.t7 isoform g12530.t7 24268592 24271106
chr_1 g12530 g12530.t7 exon g12530.t7.exon1 24268592 24268754
chr_1 g12530 g12530.t7 cds g12530.t7.CDS1 24268592 24268754
chr_1 g12530 g12530.t7 exon g12530.t7.exon2 24268810 24269514
chr_1 g12530 g12530.t7 cds g12530.t7.CDS2 24268810 24269514
chr_1 g12530 g12530.t7 exon g12530.t7.exon3 24270426 24270492
chr_1 g12530 g12530.t7 cds g12530.t7.CDS3 24270426 24270484
chr_1 g12530 g12530.t7 exon g12530.t7.exon4 24270563 24271106
chr_1 g12530 g12530.t7 TSS g12530.t7 24271137 24271137

Sequences

>g12530.t7 Gene=g12530 Length=1479
ATGTTTCTCTTTACAATTTTGTCAATTTTAATTATTGCTTTAATATCATGGTATAAAAAG
CATTTTAGGCGGCGTGATTATTTATATTCAAAAATTCCTCATCCATATCATATACCGCTT
CTACATCATAGCCTTGAATTCATCGGCAAAACGCCTAAAGAGCTATTTGATTGGATGGAA
GACATGAGCAATGAACTTGGCAACGTATATTTCTTTTCTACGGGTATTTTTGGTAGTGGT
TTTGCAGTAATTTCTGATGTAAAAATTGTAGAAGCATTGCTGTCAAGTCAAGTACAATTG
GATAAGACAATCGATTATAATTATTTAATAGATTGGATTGGAACAGGCTTACTTATTTCA
AATTCAAAGAAATGGTTTACTAGAAGAAAACTTTTGACACCAGGATTTCATTTTAAAATT
TTAGAGAGATTTGTAGAAATTCAAAATAATCAAGCAAATGTTTTCGTGAATATACTTCAA
GAATATGATGGGAAAGAAGTTGATATTTTTCCACTTGCTAGTTTATATGCACTTGATACC
GTATAAGCGGCAATGGGAATTAATATTCATGCGCAAACAAAACAATCGGATTATCTAAAA
GCAGTACAAGAGATCATCACAATAAAATCATTTGATACAACAAAGCAAATTGAATTTCTG
TATCGCTTTACAGAAATGTATCGCAGAGAAAAGAAATTAATTGAAGAATTGCATGCGTTC
ACTGACAAAATTATTCAATCGCGTAGAGAAGAATTACTGATGCACAATGAAGAAACGTCA
GAGCAAAATGATGAGATCGGAACAAAAAAGAAGAAAGCTCTTTTGGATATTTTGTTGAGT
TCAAGAGTTGAAGGAGAGCCATTAAAAAATTCCGATATTCGAGAAGAAGTTGATACATTC
ATGTTTGCCGGTCATGACACCTCTAAAAGTGGTATTTGTTTTGTATTTTATTGCATTGCT
AAGTATCCAGAAGTTCAACAAAAGGTTTATGAGGAAATAATTGAAGTGCTTGGTGATGAA
GAGGAAATAAATTTACAAAAATTGAATGAACTGCACTATCTAGAATTGGTGATTCGTGAG
TCATTAAGACTTTTTCCACCTGTACCTTATTATGGACGACAATTAGTAGAAGAGTTAATT
ACTGAAAAATATACTTTTCCAAAAGGAATGAATGTGTATGTGTCTCCTTATTTGATGGGA
AGAGATGAAAGGATTTTTCCTGAACCAAAAAAATTTGATCCGCACCGTTTTGAAGTAGAA
ATGGCTAATGATAAAATTAATCCCTTTTCGTATGTGCCTTTTTCAGCTGGTCCAAGAAAT
TGTATTGGCCAAAAATTTGCACAATATGAAATGAGAATGATCGCTGCAAAAGTTTTAAGA
AAATTTAAATTATCTATTGCTAGTGAAATCACTATCCTATCAGAATTAGTCTTGAGACCG
GAAAATGGAGTAAACTTGAAAATCGAGAAGAGAAAATAA

>g12530.t7 Gene=g12530 Length=308
MGINIHAQTKQSDYLKAVQEIITIKSFDTTKQIEFLYRFTEMYRREKKLIEELHAFTDKI
IQSRREELLMHNEETSEQNDEIGTKKKKALLDILLSSRVEGEPLKNSDIREEVDTFMFAG
HDTSKSGICFVFYCIAKYPEVQQKVYEEIIEVLGDEEEINLQKLNELHYLELVIRESLRL
FPPVPYYGRQLVEELITEKYTFPKGMNVYVSPYLMGRDERIFPEPKKFDPHRFEVEMAND
KINPFSYVPFSAGPRNCIGQKFAQYEMRMIAAKVLRKFKLSIASEITILSELVLRPENGV
NLKIEKRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g12530.t7 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 308 1.4E-83
2 g12530.t7 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 1 307 3.9E-99
3 g12530.t7 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 1 307 3.9E-99
9 g12530.t7 PRINTS PR00463 E-class P450 group I signature 108 125 1.1E-21
11 g12530.t7 PRINTS PR00385 P450 superfamily signature 119 136 3.2E-11
4 g12530.t7 PRINTS PR00463 E-class P450 group I signature 128 154 1.1E-21
8 g12530.t7 PRINTS PR00463 E-class P450 group I signature 171 189 1.1E-21
10 g12530.t7 PRINTS PR00385 P450 superfamily signature 172 183 3.2E-11
5 g12530.t7 PRINTS PR00463 E-class P450 group I signature 211 235 1.1E-21
7 g12530.t7 PRINTS PR00463 E-class P450 group I signature 247 257 1.1E-21
12 g12530.t7 PRINTS PR00385 P450 superfamily signature 248 257 3.2E-11
6 g12530.t7 PRINTS PR00463 E-class P450 group I signature 257 280 1.1E-21
13 g12530.t7 PRINTS PR00385 P450 superfamily signature 257 268 3.2E-11
1 g12530.t7 Pfam PF00067 Cytochrome P450 6 298 2.8E-81
15 g12530.t7 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 250 259 -
14 g12530.t7 SUPERFAMILY SSF48264 Cytochrome P450 22 307 4.98E-78

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. There were no conditions that were differentially expressed