Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 9f2.

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_3 g1984 g1984.t3 TTS g1984.t3 14190138 14190138
chr_3 g1984 g1984.t3 isoform g1984.t3 14190269 14191004
chr_3 g1984 g1984.t3 exon g1984.t3.exon1 14190269 14190446
chr_3 g1984 g1984.t3 cds g1984.t3.CDS1 14190269 14190446
chr_3 g1984 g1984.t3 exon g1984.t3.exon2 14190514 14190939
chr_3 g1984 g1984.t3 cds g1984.t3.CDS2 14190514 14190914
chr_3 g1984 g1984.t3 exon g1984.t3.exon3 14190999 14191004
chr_3 g1984 g1984.t3 TSS g1984.t3 NA NA

Sequences

>g1984.t3 Gene=g1984 Length=610
TCTTGCCGGTTTTGAAACAGTTGCACAAACAATGAGCTTTGTTGGTTATGAGTTGGCATG
CAATCCAGATGTGCAACAAAAACTTTTTGAAGAAATTTCGGAAATGAATGATGAAATCAA
TGGAAAAAAGATCAATTATGAACAAATTCAAAAAATGAAATATCTTGATGCAGTCATCTC
TGAAACTTTGAGAAAATGGCCTGGCGCACCTGTAACAGATCGAATTTGTGTAAAAGACTA
TGAACTTAAATATGACAATAAATGCATTAAATTCGAAGCAAATAAAACAATCATGTTGAT
ACCAATATGGAGCATTCATAGAGACCCAAAATATTATCAAAATCCTGATAAATTCGATCC
GGAAAGATTCAATGATGAAAACAAAAAATTAATCGATCCTGACACTTATTTGCCGTTTGG
TGTTGGTCCTAGAAATTGCATTGGCAGTCGATTCGCATTAATGGAAATCAAAACAATTTT
CTATTACTTGCTTTTAAACTTTAGCATTGAAGTCACAGAAAAAACTCAAATTCCTCTTGA
ATTTGAAAAAACTCCATTCGCTATTAAACCAAAGAAAGGAATTTGGGTTGAATTGAGACC
ACGCAATTAA

>g1984.t3 Gene=g1984 Length=192
MSFVGYELACNPDVQQKLFEEISEMNDEINGKKINYEQIQKMKYLDAVISETLRKWPGAP
VTDRICVKDYELKYDNKCIKFEANKTIMLIPIWSIHRDPKYYQNPDKFDPERFNDENKKL
IDPDTYLPFGVGPRNCIGSRFALMEIKTIFYYLLLNFSIEVTEKTQIPLEFEKTPFAIKP
KKGIWVELRPRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g1984.t3 Coils Coil Coil 22 42 -
14 g1984.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 192 1.5E-67
2 g1984.t3 PANTHER PTHR24292 CYTOCHROME P450 1 182 1.3E-85
3 g1984.t3 PANTHER PTHR24292:SF90 CYTOCHROME P450 317A1-RELATED 1 182 1.3E-85
7 g1984.t3 PRINTS PR00463 E-class P450 group I signature 1 25 2.6E-19
9 g1984.t3 PRINTS PR00385 P450 superfamily signature 10 23 2.7E-12
11 g1984.t3 PRINTS PR00385 P450 superfamily signature 47 58 2.7E-12
4 g1984.t3 PRINTS PR00463 E-class P450 group I signature 91 115 2.6E-19
5 g1984.t3 PRINTS PR00463 E-class P450 group I signature 126 136 2.6E-19
10 g1984.t3 PRINTS PR00385 P450 superfamily signature 127 136 2.7E-12
6 g1984.t3 PRINTS PR00463 E-class P450 group I signature 136 159 2.6E-19
8 g1984.t3 PRINTS PR00385 P450 superfamily signature 136 147 2.7E-12
1 g1984.t3 Pfam PF00067 Cytochrome P450 6 184 7.6E-55
13 g1984.t3 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 129 138 -
12 g1984.t3 SUPERFAMILY SSF48264 Cytochrome P450 1 191 2.62E-62

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.

Raw TPM values