Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 6a13.

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 g2248 g2248.t4 TSS g2248.t4 16273655 16273655
chr_3 g2248 g2248.t4 isoform g2248.t4 16274639 16276285
chr_3 g2248 g2248.t4 exon g2248.t4.exon1 16274639 16275218
chr_3 g2248 g2248.t4 cds g2248.t4.CDS1 16274639 16275218
chr_3 g2248 g2248.t4 exon g2248.t4.exon2 16275280 16275576
chr_3 g2248 g2248.t4 cds g2248.t4.CDS2 16275280 16275576
chr_3 g2248 g2248.t4 exon g2248.t4.exon3 16275637 16276035
chr_3 g2248 g2248.t4 cds g2248.t4.CDS3 16275637 16276035
chr_3 g2248 g2248.t4 exon g2248.t4.exon4 16276098 16276285
chr_3 g2248 g2248.t4 cds g2248.t4.CDS4 16276098 16276285
chr_3 g2248 g2248.t4 TTS g2248.t4 16276368 16276368

Sequences

>g2248.t4 Gene=g2248 Length=1464
ATGATTTCAACTTTATATTTTGTTATCACTATAATTATTTTGTGTTATCTGTGGATAAAA
AAACGTTACAGATATTGGAAAGATCAAGGATTTTTACAAGAAGATGCAACATTTCCTATG
GGATCTTTTAAGAATGTTGGCACTAAAGAAACTGAATTTGAGGCTTTTGATAGTTGTTAC
AAGAAATTTAAAGGAAAGGTACAAGCAGTTGGAATTTATTCATTTTTATCACCTGCAATT
TTACTCATCGATTTGGAATTGATTAAAAATATTTATGTCAAAGAATTTTCATCATTTCAA
AGTCGTGGAATGTATTATAATGAAGAAGTTGATCCATTATCAGCAAATCTTCTGACATTA
GATGGTCAAAAATGGAAAGAACGTCGTGTAAAACTAACCCAAATGTTCACTTCTGGCAAA
ATGAAAATGATGTTTGAAATAATAGATTCTATTGGTGACAAATTAGTGACTGTCCTTGAA
AATAAATTGACTGAGTCATGTAATCAAGATATGAGAAATTGGGCACAAAGATTTACAGCT
GATAATATTGGCAACACTAGTTTTGGCTTGGAATGCAAATGTTTAGAAGATGAAAATTCA
AAATTTATGAAATACGGAAGAAAGATGTTTGATTTATCAATTTTTGAAGTTATGAGATTT
ATGTTTTCAATGTCCTTTCCAAACATTTCGAAGAAACTTGGTTTACGATTCTTCAGTAAA
GAAGTTGCTGATTTCTTTTATGAAACTTTTATTCAAACTTTTGAATATCGTGAAAAGAAC
AATGTGCAGAGAAATGATTTTGTATCAATGTTACTTGAGTTGAAAGATCAATTTACAAAA
GTTCAACTTGCTGCTGAAAGCACATTAGTATTTGGTGGCTATGAAACAAGTTCAACATTG
ATGACTTTCATACTTTATGAGCTTGCACTTAATCCAGACATTCAACAAAAATTAAGAGAT
GAAATTGAATCAAGAATTGAAGAAAATGATGGAAAATTAACTTATGAAATGTTGAATGAG
CTTAAATTTCTTGACATGGTGACTAATGAAACTTTAAGAAAATATCCACCAATTGCAAGT
GGCATTAGACTTTGCAACAAAGACTACGAAATTCCTGGTACAAATTTAACTATTTCTTCA
GGAATTCCTGTTCAAATAAACACTTATTCACTTCATCATGATCCTGATTATTTTCCAAAT
CCAAACACATTTGATCCTGAAAGATTTAATGAAGAAAATTTTAAAAATATCAAGCCATAC
ACTTATGCACCATTTGGATATGGACCAAGAATCTGTATAGGAATGAGGTTTGGTCTGATG
CAATCAAAAATTGGTATTGCAAAATTAGTGGCAAATTTTTCATTTTCTCCTTGTGAAAAG
ACAATGATTCCGATGAAATATTCAACCACTAATCCATTCATGGCTCCACAAAACGGTATG
TGGTTGAAAGTTGAGAGAATTTGA

>g2248.t4 Gene=g2248 Length=487
MISTLYFVITIIILCYLWIKKRYRYWKDQGFLQEDATFPMGSFKNVGTKETEFEAFDSCY
KKFKGKVQAVGIYSFLSPAILLIDLELIKNIYVKEFSSFQSRGMYYNEEVDPLSANLLTL
DGQKWKERRVKLTQMFTSGKMKMMFEIIDSIGDKLVTVLENKLTESCNQDMRNWAQRFTA
DNIGNTSFGLECKCLEDENSKFMKYGRKMFDLSIFEVMRFMFSMSFPNISKKLGLRFFSK
EVADFFYETFIQTFEYREKNNVQRNDFVSMLLELKDQFTKVQLAAESTLVFGGYETSSTL
MTFILYELALNPDIQQKLRDEIESRIEENDGKLTYEMLNELKFLDMVTNETLRKYPPIAS
GIRLCNKDYEIPGTNLTISSGIPVQINTYSLHHDPDYFPNPNTFDPERFNEENFKNIKPY
TYAPFGYGPRICIGMRFGLMQSKIGIAKLVANFSFSPCEKTMIPMKYSTTNPFMAPQNGM
WLKVERI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g2248.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 14 487 2.0E-131
2 g2248.t4 PANTHER PTHR24292 CYTOCHROME P450 5 486 7.2E-164
3 g2248.t4 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 486 7.2E-164
8 g2248.t4 PRINTS PR00463 E-class P450 group I signature 87 108 5.9E-19
7 g2248.t4 PRINTS PR00463 E-class P450 group I signature 281 298 5.9E-19
11 g2248.t4 PRINTS PR00385 P450 superfamily signature 292 309 1.6E-9
6 g2248.t4 PRINTS PR00463 E-class P450 group I signature 301 327 5.9E-19
10 g2248.t4 PRINTS PR00385 P450 superfamily signature 346 357 1.6E-9
5 g2248.t4 PRINTS PR00463 E-class P450 group I signature 387 411 5.9E-19
9 g2248.t4 PRINTS PR00463 E-class P450 group I signature 422 432 5.9E-19
13 g2248.t4 PRINTS PR00385 P450 superfamily signature 423 432 1.6E-9
4 g2248.t4 PRINTS PR00463 E-class P450 group I signature 432 455 5.9E-19
12 g2248.t4 PRINTS PR00385 P450 superfamily signature 432 443 1.6E-9
1 g2248.t4 Pfam PF00067 Cytochrome P450 40 479 1.5E-95
17 g2248.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
20 g2248.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 23 -
16 g2248.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 24 69 -
19 g2248.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 88 -
18 g2248.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 89 487 -
23 g2248.t4 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 425 434 -
14 g2248.t4 SUPERFAMILY SSF48264 Cytochrome P450 52 485 4.45E-110
21 g2248.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 19 -
22 g2248.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 69 88 -

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