Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 6a2.

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 g61 g61.t1 TTS g61.t1 440174 440174
chr_3 g61 g61.t1 isoform g61.t1 440180 442279
chr_3 g61 g61.t1 exon g61.t1.exon1 440180 440336
chr_3 g61 g61.t1 cds g61.t1.CDS1 440180 440336
chr_3 g61 g61.t1 exon g61.t1.exon2 440581 440605
chr_3 g61 g61.t1 cds g61.t1.CDS2 440581 440605
chr_3 g61 g61.t1 exon g61.t1.exon3 440705 440938
chr_3 g61 g61.t1 cds g61.t1.CDS3 440705 440938
chr_3 g61 g61.t1 exon g61.t1.exon4 440989 441090
chr_3 g61 g61.t1 cds g61.t1.CDS4 440989 441090
chr_3 g61 g61.t1 exon g61.t1.exon5 441295 441640
chr_3 g61 g61.t1 cds g61.t1.CDS5 441295 441640
chr_3 g61 g61.t1 exon g61.t1.exon6 441701 442279
chr_3 g61 g61.t1 cds g61.t1.CDS6 441701 442279
chr_3 g61 g61.t1 TSS g61.t1 442317 442317

Sequences

>g61.t1 Gene=g61 Length=1443
ATGTTTTTGGCAAATATTTTGCTATTTTTGGTTTTACCAATCGTCGCTATTGTCTACTTA
TATTTTAATAAAAAGTTTTCCTACTTCAAAAATCTTGGCATTCCTTACATTGAGCCAAAA
TTTCCATTGGGAAATTTAAACGGAATTGGAAGTACTCGTCATATGTATGATATTGTTAGA
AACATTTATGATGAATTGCACACTAAAGGCCCAGTTGTTGGAATGTATAACCTTACACAG
CCATTTTATTACATCACAGACCTTGAATTGATTAAAAATATAACAATAAAAGATTTCAAT
AATTTCATCAATCGTGGTGTTTACTCAAATGAAAAAGATGAACCACTAACTGCCCACCTT
TTCACACTTGAAGATGAAAAATGGAGATTTTTGAGAAATAAACTTTCGATTGCTTTTACT
TCTGGTAAAATGAAACTGATGTATTATACAATTGGTGACAAGGGGCACGATCTAGTCACA
TTAATTGAAAAAGCTTCTAAAAATAATAAAACGATCAACATCAAAGACATTACAAATCTC
TTTGCAACTGATGTCGTTAGCTCAGTAGCATTTGGCATGGAATCTAATACAATGAATGGT
GAACATCCTGAATTAAAGCGTTTCTTTAAAGAAATTTTCGCAGCTGATGGTTATACAATG
TTGAAATTTTTCTTTCTCATGAGCTTCCCAAAACTGGGAAAATTTTTAAAAATGCGACTC
TTTAGTAAGGAAATGTCAGATTTCTTTATCAATATTGTTGGTGGAAATATTGCATATCGT
GAAAAAATCAATGATAATCGACCTGATTTTCTTAATATGCTGATTCAACTTAAAAATAAA
GGATCAATTGATGGAGATTTCTCAACAGAGACTAGAAAATTGACATTCAATGAAATTATT
CCTCAAGCTTTTGTGTTCTTTTTTGATAAATTGAGGGAAGAAATTAATGAAAAAACAAAA
GGAGAAAAGGGAGAAATTACTTATGAAAATTTACATGAAATGACTTATCTAAATCAAGTC
ATTAACGAAACGCTTCGAATGTACACGGGAGGGTTTGCTTTAATCCGTAAATCTGCAGAA
GATTATCCAATACCAAATTCAAAAATAATTATCCCAAAAGGTGCATCAGTTTTTATTCCC
ATTATTGGCTTGCATTATGATGAACGTTATTGGAAAAATCCAGAGAAATTTGATCCAGGC
AGATTCACTCAAGAAGAAATTGCAAAAAGACCAAATTATTGCTATCAACCATTTGGTGAA
GGTTTACGTAACTGCATTGGCAAACGATTTGCTCTATTAAATGTCAAATTCGGTGTTGCA
GTAATCATCAAAAATTTCAAAGTCTTTCCAGATGATAAAATGAAGTACCCAATCAAAATG
AACCCAAAGAATCCAAATTTAGAAGCAGAAGGTGGTTTTTGGTTGAGATTTGAAAAAATC
TAA

>g61.t1 Gene=g61 Length=480
MFLANILLFLVLPIVAIVYLYFNKKFSYFKNLGIPYIEPKFPLGNLNGIGSTRHMYDIVR
NIYDELHTKGPVVGMYNLTQPFYYITDLELIKNITIKDFNNFINRGVYSNEKDEPLTAHL
FTLEDEKWRFLRNKLSIAFTSGKMKLMYYTIGDKGHDLVTLIEKASKNNKTINIKDITNL
FATDVVSSVAFGMESNTMNGEHPELKRFFKEIFAADGYTMLKFFFLMSFPKLGKFLKMRL
FSKEMSDFFINIVGGNIAYREKINDNRPDFLNMLIQLKNKGSIDGDFSTETRKLTFNEII
PQAFVFFFDKLREEINEKTKGEKGEITYENLHEMTYLNQVINETLRMYTGGFALIRKSAE
DYPIPNSKIIIPKGASVFIPIIGLHYDERYWKNPEKFDPGRFTQEEIAKRPNYCYQPFGE
GLRNCIGKRFALLNVKFGVAVIIKNFKVFPDDKMKYPIKMNPKNPNLEAEGGFWLRFEKI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g61.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 17 308 1.7E-51
13 g61.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 309 470 5.8E-53
4 g61.t1 PANTHER PTHR24292 CYTOCHROME P450 6 308 6.3E-145
6 g61.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 6 308 6.3E-145
3 g61.t1 PANTHER PTHR24292 CYTOCHROME P450 309 480 6.3E-145
5 g61.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 309 480 6.3E-145
8 g61.t1 PRINTS PR00465 E-class P450 group IV signature 334 350 4.0E-14
7 g61.t1 PRINTS PR00465 E-class P450 group IV signature 385 403 4.0E-14
9 g61.t1 PRINTS PR00465 E-class P450 group IV signature 409 425 4.0E-14
10 g61.t1 PRINTS PR00465 E-class P450 group IV signature 425 443 4.0E-14
2 g61.t1 Pfam PF00067 Cytochrome P450 43 308 2.2E-26
1 g61.t1 Pfam PF00067 Cytochrome P450 309 461 4.7E-46
15 g61.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
16 g61.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 22 -
14 g61.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 23 480 -
18 g61.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 418 427 -
11 g61.t1 SUPERFAMILY SSF48264 Cytochrome P450 35 478 8.12E-93
17 g61.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 21 -

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