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.t13 isoform g15086.t13 3855817 3856861
chr_4 g15086 g15086.t13 exon g15086.t13.exon1 3855817 3856075
chr_4 g15086 g15086.t13 cds g15086.t13.CDS1 3855859 3856075
chr_4 g15086 g15086.t13 exon g15086.t13.exon2 3856133 3856372
chr_4 g15086 g15086.t13 cds g15086.t13.CDS2 3856133 3856372
chr_4 g15086 g15086.t13 exon g15086.t13.exon3 3856475 3856633
chr_4 g15086 g15086.t13 cds g15086.t13.CDS3 3856475 3856633
chr_4 g15086 g15086.t13 exon g15086.t13.exon4 3856686 3856861
chr_4 g15086 g15086.t13 cds g15086.t13.CDS4 3856686 3856861
chr_4 g15086 g15086.t13 TTS g15086.t13 3856885 3856885
chr_4 g15086 g15086.t13 TSS g15086.t13 NA NA

Sequences

>g15086.t13 Gene=g15086 Length=834
AATTTTTTCTTAAGAAATAAAATTATTTATAAATTTTCATCAATGAAAAGACGACAAGAT
AAATTGTTAAAAATTTTACATGGTTTTACTGATGATGTTATAATTTCAAGACGTGAAGAA
TTGATTAAAAATCAAGAAATTTCGCAAAATAAGAAAAAGAAGATGGCCTTTCTTGATGTT
CTTTTACAATCGACAATCGAAGGAAAACCATTGTCAAATATGGACATAAGAGAAGAAGTT
GATATTTTTATGTTTGAAGGGTTTGACACAACTAGCAGTGGAATTGCTTTTTGCCTTTAC
AATCTTGCTAAATATCCTGCAGTGCAGAAAAAAGTTTTTGAAGAAATAATTAAAGTTATT
GGTGCTGATAAAGACAAATCAGTGACATTGACAAATTTAAATGATTTAAAATATCTTGAA
ATGGTGATTAAAGAAACTTTAAGACTTTATCCTAGTGTTCCAGCTTATGGCAGAAAAATG
GTTGAAAATGTTGAAATTAATGGAAAATTAATACCACGTGGAACTAATATTGGAATAGGA
CCCTATTTTATGGCACGCGATGCTTCTTTATGGAAAAATCCTTTAGAATTCATTCCTGAA
AGATTTAGCACAAATGAATCTCAATATCATCCTTTTCTTCATGTTCCGTTTTCTGCTGGT
CCTAGAAATTGTGTAGGCCAAAAATTTGCAATGCTTGAAATGAAAAGTGTTGTTTCAAAA
ATTCTTAGAAATTATGAAATTCAAGTTGATAGTGATTTTAAATTAGTTTTACTTTTTGAA
GTTATTTTAAGACCAGAAAATGGAGTTTTTTTGAAAATGATTAAAAGAAAATGA

>g15086.t13 Gene=g15086 Length=263
MKRRQDKLLKILHGFTDDVIISRREELIKNQEISQNKKKKMAFLDVLLQSTIEGKPLSNM
DIREEVDIFMFEGFDTTSSGIAFCLYNLAKYPAVQKKVFEEIIKVIGADKDKSVTLTNLN
DLKYLEMVIKETLRLYPSVPAYGRKMVENVEINGKLIPRGTNIGIGPYFMARDASLWKNP
LEFIPERFSTNESQYHPFLHVPFSAGPRNCVGQKFAMLEMKSVVSKILRNYEIQVDSDFK
LVLLFEVILRPENGVFLKMIKRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g15086.t13 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 263 6.1E-81
2 g15086.t13 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 2 262 5.0E-98
3 g15086.t13 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 2 262 5.0E-98
4 g15086.t13 PRINTS PR00463 E-class P450 group I signature 61 78 1.3E-22
12 g15086.t13 PRINTS PR00385 P450 superfamily signature 72 89 1.1E-14
9 g15086.t13 PRINTS PR00463 E-class P450 group I signature 81 107 1.3E-22
5 g15086.t13 PRINTS PR00463 E-class P450 group I signature 126 144 1.3E-22
13 g15086.t13 PRINTS PR00385 P450 superfamily signature 127 138 1.1E-14
7 g15086.t13 PRINTS PR00463 E-class P450 group I signature 166 190 1.3E-22
6 g15086.t13 PRINTS PR00463 E-class P450 group I signature 200 210 1.3E-22
10 g15086.t13 PRINTS PR00385 P450 superfamily signature 201 210 1.1E-14
8 g15086.t13 PRINTS PR00463 E-class P450 group I signature 210 233 1.3E-22
11 g15086.t13 PRINTS PR00385 P450 superfamily signature 210 221 1.1E-14
1 g15086.t13 Pfam PF00067 Cytochrome P450 2 258 1.2E-77
15 g15086.t13 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 203 212 -
14 g15086.t13 SUPERFAMILY SSF48264 Cytochrome P450 2 262 5.5E-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