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_4 g15086 g15086.t12 TSS g15086.t12 3854791 3854791
chr_4 g15086 g15086.t12 isoform g15086.t12 3855667 3856861
chr_4 g15086 g15086.t12 exon g15086.t12.exon1 3855667 3855732
chr_4 g15086 g15086.t12 cds g15086.t12.CDS1 3855671 3855732
chr_4 g15086 g15086.t12 exon g15086.t12.exon2 3855786 3856075
chr_4 g15086 g15086.t12 cds g15086.t12.CDS2 3855786 3856075
chr_4 g15086 g15086.t12 exon g15086.t12.exon3 3856133 3856372
chr_4 g15086 g15086.t12 cds g15086.t12.CDS3 3856133 3856372
chr_4 g15086 g15086.t12 exon g15086.t12.exon4 3856475 3856633
chr_4 g15086 g15086.t12 cds g15086.t12.CDS4 3856475 3856633
chr_4 g15086 g15086.t12 exon g15086.t12.exon5 3856686 3856861
chr_4 g15086 g15086.t12 cds g15086.t12.CDS5 3856686 3856861
chr_4 g15086 g15086.t12 TTS g15086.t12 3856885 3856885

Sequences

>g15086.t12 Gene=g15086 Length=931
TGCTATGGGAATTGAAATTCACGCTCAGGCAAATTCAAATTCTGATTATGTTCGTGCTGT
TAAAGAAATGAGTAATTTAGCAATGGCAAGAAGCGTCAATTTTTTCTTAAGAAATAAAAT
TATTTATAAATTTTCATCAATGAAAAGACGACAAGATAAATTGTTAAAAATTTTACATGG
TTTTACTGATGATGTTATAATTTCAAGACGTGAAGAATTGATTAAAAATCAAGAAATTTC
GCAAAATAAGAAAAAGAAGATGGCCTTTCTTGATGTTCTTTTACAATCGACAATCGAAGG
AAAACCATTGTCAAATATGGACATAAGAGAAGAAGTTGATATTTTTATGTTTGAAGGGTT
TGACACAACTAGCAGTGGAATTGCTTTTTGCCTTTACAATCTTGCTAAATATCCTGCAGT
GCAGAAAAAAGTTTTTGAAGAAATAATTAAAGTTATTGGTGCTGATAAAGACAAATCAGT
GACATTGACAAATTTAAATGATTTAAAATATCTTGAAATGGTGATTAAAGAAACTTTAAG
ACTTTATCCTAGTGTTCCAGCTTATGGCAGAAAAATGGTTGAAAATGTTGAAATTAATGG
AAAATTAATACCACGTGGAACTAATATTGGAATAGGACCCTATTTTATGGCACGCGATGC
TTCTTTATGGAAAAATCCTTTAGAATTCATTCCTGAAAGATTTAGCACAAATGAATCTCA
ATATCATCCTTTTCTTCATGTTCCGTTTTCTGCTGGTCCTAGAAATTGTGTAGGCCAAAA
ATTTGCAATGCTTGAAATGAAAAGTGTTGTTTCAAAAATTCTTAGAAATTATGAAATTCA
AGTTGATAGTGATTTTAAATTAGTTTTACTTTTTGAAGTTATTTTAAGACCAGAAAATGG
AGTTTTTTTGAAAATGATTAAAAGAAAATGA

>g15086.t12 Gene=g15086 Length=308
MGIEIHAQANSNSDYVRAVKEMSNLAMARSVNFFLRNKIIYKFSSMKRRQDKLLKILHGF
TDDVIISRREELIKNQEISQNKKKKMAFLDVLLQSTIEGKPLSNMDIREEVDIFMFEGFD
TTSSGIAFCLYNLAKYPAVQKKVFEEIIKVIGADKDKSVTLTNLNDLKYLEMVIKETLRL
YPSVPAYGRKMVENVEINGKLIPRGTNIGIGPYFMARDASLWKNPLEFIPERFSTNESQY
HPFLHVPFSAGPRNCVGQKFAMLEMKSVVSKILRNYEIQVDSDFKLVLLFEVILRPENGV
FLKMIKRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g15086.t12 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 308 5.3E-85
2 g15086.t12 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 1 307 2.9E-112
3 g15086.t12 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 1 307 2.9E-112
4 g15086.t12 PRINTS PR00463 E-class P450 group I signature 106 123 2.8E-22
13 g15086.t12 PRINTS PR00385 P450 superfamily signature 117 134 1.9E-14
6 g15086.t12 PRINTS PR00463 E-class P450 group I signature 126 152 2.8E-22
8 g15086.t12 PRINTS PR00463 E-class P450 group I signature 171 189 2.8E-22
10 g15086.t12 PRINTS PR00385 P450 superfamily signature 172 183 1.9E-14
5 g15086.t12 PRINTS PR00463 E-class P450 group I signature 211 235 2.8E-22
7 g15086.t12 PRINTS PR00463 E-class P450 group I signature 245 255 2.8E-22
12 g15086.t12 PRINTS PR00385 P450 superfamily signature 246 255 1.9E-14
9 g15086.t12 PRINTS PR00463 E-class P450 group I signature 255 278 2.8E-22
11 g15086.t12 PRINTS PR00385 P450 superfamily signature 255 266 1.9E-14
1 g15086.t12 Pfam PF00067 Cytochrome P450 4 303 8.6E-84
15 g15086.t12 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 248 257 -
14 g15086.t12 SUPERFAMILY SSF48264 Cytochrome P450 1 307 7.2E-83

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