Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 6A1.

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 g1088 g1088.t4 TSS g1088.t4 8073659 8073659
chr_3 g1088 g1088.t4 isoform g1088.t4 8073698 8075872
chr_3 g1088 g1088.t4 exon g1088.t4.exon1 8073698 8074616
chr_3 g1088 g1088.t4 cds g1088.t4.CDS1 8073698 8074616
chr_3 g1088 g1088.t4 exon g1088.t4.exon2 8074676 8074860
chr_3 g1088 g1088.t4 cds g1088.t4.CDS2 8074676 8074860
chr_3 g1088 g1088.t4 exon g1088.t4.exon3 8075426 8075636
chr_3 g1088 g1088.t4 cds g1088.t4.CDS3 8075426 8075636
chr_3 g1088 g1088.t4 exon g1088.t4.exon4 8075691 8075872
chr_3 g1088 g1088.t4 cds g1088.t4.CDS4 8075691 8075872
chr_3 g1088 g1088.t4 TTS g1088.t4 8075893 8075893

Sequences

>g1088.t4 Gene=g1088 Length=1497
ATGATTTTAGAAATTTTACTTTCAATATTTTTCATTTTTTTACTTTCTCTCTATCGGCAT
TTTAAGAGAAATTATGAATTTTGGAGAAATAGACAGATTCCATTCTTGCAGCCAACATTT
CCAGTTGGTAATATGATGGAAGCTGTCAAAACAAAACAACATTTTGGTTTCGTCATGGAA
GATATTTACCAACACATGAAAAAACGATCAGATGTTGGTGACTATTGCGGCATTTTTTTC
TTTCATCAACCTGTGTTGCTCGTTATGACACCAGAATTTGCTAAAACAGTTTTAGTACGT
GATTTTAATTATTTTGCCGATCGTGGAGTTTATTCAAATGAGGAAGTTGATACATTAAGT
GGAAATTTATTCTTTCTTGAAGGACCAAGATGGAGGTTTTTAAGGCAAAAATTAGCTCCA
ACATTTACTTCAGGAAAACTTAAAAGTATGTTTCCAATAATTCTTGATGTTGGACAGAAA
TTTGTAGAACATTTAAAACCTTATGGAGAGAAGAACATGGAAATTGAAATTTATGATTTA
TTAGCAAGATTTTTAACTGATATTATCAGTTCTTGTGCTTTTGGTTTTGACTCAAATTCA
CTTGAAAATCCAGACAATGAATTTAGAACAATTTCGCAAAAAGGATTAAATTTAAGTAAA
TTCAAAAGCCTAAAATGTTTCCTCTCTATGGTTTTTAGAGAAAAAGCAAGAAAGTTTGGA
CTTCGATTCTTTGATGAAGAAATAAATGATTATTTTTCAAATTTGGTTGAAACAACAATC
GCAAATAGAAAGAAATCTGGCATTAAAAGAAAAGATTTCTTGGAACTTTTAATTAATTTG
ATGGAAAAAGATGATGAGAATGGTGAAAAATTGAATATAAAAGAAGTCACAGCTCAAGCA
TTTATTTTTATGATAGCAGGCTTTGAAACATCAAGCACAAATTTGTCCTATGCACTTCAT
CTTCTCGCTTATCATCAAGACATTCAAGATAAGGCTCGCAAAAGTATTGATAAAAAGCTT
AACGAATTTGACAATCAATGGAGTTACGATGCAATAATGGAAATGACGTATTTGGAGCAA
ATTATTGAAGAGTCTCTAAGGTCACCAATAGCAACATTACATAGAATTACAACCAAAGAA
TATACATTACCAAATGGAAAAACAATTCCTGAAAATACTGGAGTAATTATTCCAAATTTA
GCTTATCAAAGAGATCCAGAACATTTTCCTGATCCTTTAAAATTTGATCCTGAAAGATTC
AATGCTGAAAATAAAAATTCAAGACATCAATTTACTTATTTACCTTTTGGAGATGGACCA
CGTTTTTGTATTGGTATGAGATTTGGTCAACTTCAATCACGCCTTGGTCTTGCACTTTTA
CTTAAAAATTTCAAATTCGAACCATGTGACAAAACTGAAAATCCAATAGAAATTCATCCT
ATAAAGTTAATTTACGCTCCAAAAAATGGCATGTATTTGAGAATAAAGAAAATTTAA

>g1088.t4 Gene=g1088 Length=498
MILEILLSIFFIFLLSLYRHFKRNYEFWRNRQIPFLQPTFPVGNMMEAVKTKQHFGFVME
DIYQHMKKRSDVGDYCGIFFFHQPVLLVMTPEFAKTVLVRDFNYFADRGVYSNEEVDTLS
GNLFFLEGPRWRFLRQKLAPTFTSGKLKSMFPIILDVGQKFVEHLKPYGEKNMEIEIYDL
LARFLTDIISSCAFGFDSNSLENPDNEFRTISQKGLNLSKFKSLKCFLSMVFREKARKFG
LRFFDEEINDYFSNLVETTIANRKKSGIKRKDFLELLINLMEKDDENGEKLNIKEVTAQA
FIFMIAGFETSSTNLSYALHLLAYHQDIQDKARKSIDKKLNEFDNQWSYDAIMEMTYLEQ
IIEESLRSPIATLHRITTKEYTLPNGKTIPENTGVIIPNLAYQRDPEHFPDPLKFDPERF
NAENKNSRHQFTYLPFGDGPRFCIGMRFGQLQSRLGLALLLKNFKFEPCDKTENPIEIHP
IKLIYAPKNGMYLRIKKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1088.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 16 498 2.2E-131
2 g1088.t4 PANTHER PTHR24292 CYTOCHROME P450 5 498 2.0E-176
3 g1088.t4 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 498 2.0E-176
8 g1088.t4 PRINTS PR00463 E-class P450 group I signature 295 312 2.9E-16
11 g1088.t4 PRINTS PR00385 P450 superfamily signature 306 323 9.7E-8
4 g1088.t4 PRINTS PR00463 E-class P450 group I signature 315 341 2.9E-16
7 g1088.t4 PRINTS PR00463 E-class P450 group I signature 398 422 2.9E-16
6 g1088.t4 PRINTS PR00463 E-class P450 group I signature 433 443 2.9E-16
9 g1088.t4 PRINTS PR00385 P450 superfamily signature 434 443 9.7E-8
5 g1088.t4 PRINTS PR00463 E-class P450 group I signature 443 466 2.9E-16
10 g1088.t4 PRINTS PR00385 P450 superfamily signature 443 454 9.7E-8
1 g1088.t4 Pfam PF00067 Cytochrome P450 61 492 5.9E-98
16 g1088.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
17 g1088.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
18 g1088.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 15 -
19 g1088.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
15 g1088.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 498 -
13 g1088.t4 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 436 445 -
12 g1088.t4 SUPERFAMILY SSF48264 Cytochrome P450 25 497 1.96E-110

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