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_2 g4848 g4848.t3 TTS g4848.t3 5390806 5390806
chr_2 g4848 g4848.t3 isoform g4848.t3 5391469 5392622
chr_2 g4848 g4848.t3 exon g4848.t3.exon1 5391469 5391636
chr_2 g4848 g4848.t3 cds g4848.t3.CDS1 5391470 5391636
chr_2 g4848 g4848.t3 exon g4848.t3.exon2 5391702 5392050
chr_2 g4848 g4848.t3 cds g4848.t3.CDS2 5391702 5392050
chr_2 g4848 g4848.t3 exon g4848.t3.exon3 5392115 5392622
chr_2 g4848 g4848.t3 cds g4848.t3.CDS3 5392115 5392438
chr_2 g4848 g4848.t3 TSS g4848.t3 5392735 5392735

Sequences

>g4848.t3 Gene=g4848 Length=1025
AAAATTTAATTTTTTTAAAGAACGTGGAATACCCTATGTAGAACCATCATTTCCACTTGG
AAATTTTCAAGGAGTCGGCTCAAAATATCATTCATTTGATGTATTTCGTGACATTTATGA
TAAACTCAAGGGCAAAGATGTCATCGCTGGAGTTTACAGTTTTACTCAACCTGTTTATTT
AATTATGGATGTTGAACTTGTCAAAAATGTTTTAATTCGTGATTTCAATACTTTTATTAA
TCGTGGTGGTTTCGTGAATGAAAAAGATGAACCTTTGACTGGTCATTTGTTTTCCTTAAA
AGATGACAAATGGAGATTTTTGAGGAACAAGCTATCGCCGGCTTTTACTTCTGGAAAAAT
GAAAGCTATGTATTACACAATTAGTGACAAAGGAAAAGATTATGTTGATTTAGTTGACAA
TGTTCTAAAAGAAGGCAAAGCAATAAATATCAAGGAAATCACAAATTGCTATACAGTCGA
TGTTGTAGCTTCAGTTGCTTTTGGCATGGAATCAAACACAATGAAAGGAGAACATCCAGA
ATTATTAAATATTTTCAAAGAACTTTTTGGTCCAGATGGAACTAGTTTTTTGAAATTTTT
CTTTTTAAATGCTTTCCCAAATTTTTCCAAAACTATCAAACTTAGAGTTTTCTCCAAAGA
TATTTCGGACTTTTTCATTAATGTTATTAGTCGAAATATTGAAAATCGTGAAAAAACAAA
TGACAACAGACAAGATTTCTTAAACATGTTGATTCAGTTGAAGAACAAAGGATCAATTGA
TGGAGAATTTTCAACTGAAAACAGAAAAATTACTTTGAATGACGCTTTGGCTCAAGCATT
TGTTTTCTATTTTGCAAGTGCTGATGCTTCAAGTACAACGATTTCTTTTGCATTGGCTGA
ACTAGCACATCACAGTGAAATACAAGAAAGATTAAGAACGGAAATTTTAGAAAAGACTAA
AGGAAAAGAAAATGATGAAATTAGTTATGAAACATTGCAAGAAATGACTTATTTGGGTCA
AGTAG

>g4848.t3 Gene=g4848 Length=280
MDVELVKNVLIRDFNTFINRGGFVNEKDEPLTGHLFSLKDDKWRFLRNKLSPAFTSGKMK
AMYYTISDKGKDYVDLVDNVLKEGKAINIKEITNCYTVDVVASVAFGMESNTMKGEHPEL
LNIFKELFGPDGTSFLKFFFLNAFPNFSKTIKLRVFSKDISDFFINVISRNIENREKTND
NRQDFLNMLIQLKNKGSIDGEFSTENRKITLNDALAQAFVFYFASADASSTTISFALAEL
AHHSEIQERLRTEILEKTKGKENDEISYETLQEMTYLGQV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g4848.t3 Coils Coil Coil 175 195 -
7 g4848.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 280 5.0E-61
2 g4848.t3 PANTHER PTHR24292 CYTOCHROME P450 1 280 2.1E-86
3 g4848.t3 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 1 280 2.1E-86
5 g4848.t3 PRINTS PR00464 Group II E-class P450 signature 40 60 1.1E-8
4 g4848.t3 PRINTS PR00464 Group II E-class P450 signature 95 113 1.1E-8
1 g4848.t3 Pfam PF00067 Cytochrome P450 2 280 1.9E-40
6 g4848.t3 SUPERFAMILY SSF48264 Cytochrome P450 2 280 7.86E-51

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:0004497 monooxygenase activity 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