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.t5 TSS g2248.t5 16273655 16273655
chr_3 g2248 g2248.t5 isoform g2248.t5 16274639 16276285
chr_3 g2248 g2248.t5 exon g2248.t5.exon1 16274639 16275218
chr_3 g2248 g2248.t5 cds g2248.t5.CDS1 16274639 16275218
chr_3 g2248 g2248.t5 exon g2248.t5.exon2 16275280 16275573
chr_3 g2248 g2248.t5 cds g2248.t5.CDS2 16275280 16275573
chr_3 g2248 g2248.t5 exon g2248.t5.exon3 16275637 16276035
chr_3 g2248 g2248.t5 cds g2248.t5.CDS3 16275637 16276035
chr_3 g2248 g2248.t5 exon g2248.t5.exon4 16276098 16276285
chr_3 g2248 g2248.t5 cds g2248.t5.CDS4 16276098 16276285
chr_3 g2248 g2248.t5 TTS g2248.t5 16276368 16276368

Sequences

>g2248.t5 Gene=g2248 Length=1461
ATGATTTCAACTTTATATTTTGTTATCACTATAATTATTTTGTGTTATCTGTGGATAAAA
AAACGTTACAGATATTGGAAAGATCAAGGATTTTTACAAGAAGATGCAACATTTCCTATG
GGATCTTTTAAGAATGTTGGCACTAAAGAAACTGAATTTGAGGCTTTTGATAGTTGTTAC
AAGAAATTTAAAGGAAAGGTACAAGCAGTTGGAATTTATTCATTTTTATCACCTGCAATT
TTACTCATCGATTTGGAATTGATTAAAAATATTTATGTCAAAGAATTTTCATCATTTCAA
AGTCGTGGAATGTATTATAATGAAGAAGTTGATCCATTATCAGCAAATCTTCTGACATTA
GATGGTCAAAAATGGAAAGAACGTCGTGTAAAACTAACCCAAATGTTCACTTCTGGCAAA
ATGAAAATGATGTTTGAAATAATAGATTCTATTGGTGACAAATTAGTGACTGTCCTTGAA
AATAAATTGACTGAGTCATGTAATCAAGATATGAGAAATTGGGCACAAAGATTTACAGCT
GATAATATTGGCAACACTAGTTTTGGCTTGGAATGCAAATGTTTAGAAGATGAAAATTCA
AAATTTATGAAATACGGAAGAAAGATGTTTGATTTATCAATTTTTGAAGTTATGAGATTT
ATGTTTTCAATGTCCTTTCCAAACATTTCGAAGAAACTTGGTTTACGATTCTTCAGTAAA
GAAGTTGCTGATTTCTTTTATGAAACTTTTATTCAAACTTTTGAATATCGTGAAAAGAAC
AATGTGCAGAGAAATGATTTTGTATCAATGTTACTTGAGTTGAAAGATCAATTTACAAAA
GTTCAACTTGCTGCTGAAAGCACATTAGTATTTGGCTATGAAACAAGTTCAACATTGATG
ACTTTCATACTTTATGAGCTTGCACTTAATCCAGACATTCAACAAAAATTAAGAGATGAA
ATTGAATCAAGAATTGAAGAAAATGATGGAAAATTAACTTATGAAATGTTGAATGAGCTT
AAATTTCTTGACATGGTGACTAATGAAACTTTAAGAAAATATCCACCAATTGCAAGTGGC
ATTAGACTTTGCAACAAAGACTACGAAATTCCTGGTACAAATTTAACTATTTCTTCAGGA
ATTCCTGTTCAAATAAACACTTATTCACTTCATCATGATCCTGATTATTTTCCAAATCCA
AACACATTTGATCCTGAAAGATTTAATGAAGAAAATTTTAAAAATATCAAGCCATACACT
TATGCACCATTTGGATATGGACCAAGAATCTGTATAGGAATGAGGTTTGGTCTGATGCAA
TCAAAAATTGGTATTGCAAAATTAGTGGCAAATTTTTCATTTTCTCCTTGTGAAAAGACA
ATGATTCCGATGAAATATTCAACCACTAATCCATTCATGGCTCCACAAAACGGTATGTGG
TTGAAAGTTGAGAGAATTTGA

>g2248.t5 Gene=g2248 Length=486
MISTLYFVITIIILCYLWIKKRYRYWKDQGFLQEDATFPMGSFKNVGTKETEFEAFDSCY
KKFKGKVQAVGIYSFLSPAILLIDLELIKNIYVKEFSSFQSRGMYYNEEVDPLSANLLTL
DGQKWKERRVKLTQMFTSGKMKMMFEIIDSIGDKLVTVLENKLTESCNQDMRNWAQRFTA
DNIGNTSFGLECKCLEDENSKFMKYGRKMFDLSIFEVMRFMFSMSFPNISKKLGLRFFSK
EVADFFYETFIQTFEYREKNNVQRNDFVSMLLELKDQFTKVQLAAESTLVFGYETSSTLM
TFILYELALNPDIQQKLRDEIESRIEENDGKLTYEMLNELKFLDMVTNETLRKYPPIASG
IRLCNKDYEIPGTNLTISSGIPVQINTYSLHHDPDYFPNPNTFDPERFNEENFKNIKPYT
YAPFGYGPRICIGMRFGLMQSKIGIAKLVANFSFSPCEKTMIPMKYSTTNPFMAPQNGMW
LKVERI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g2248.t5 Gene3D G3DSA:1.10.630.10 Cytochrome p450 14 486 2.4E-129
2 g2248.t5 PANTHER PTHR24292 CYTOCHROME P450 5 485 3.6E-163
3 g2248.t5 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 485 3.6E-163
8 g2248.t5 PRINTS PR00463 E-class P450 group I signature 87 108 2.3E-19
6 g2248.t5 PRINTS PR00463 E-class P450 group I signature 280 297 2.3E-19
10 g2248.t5 PRINTS PR00385 P450 superfamily signature 291 308 9.5E-9
5 g2248.t5 PRINTS PR00463 E-class P450 group I signature 300 326 2.3E-19
12 g2248.t5 PRINTS PR00385 P450 superfamily signature 345 356 9.5E-9
4 g2248.t5 PRINTS PR00463 E-class P450 group I signature 386 410 2.3E-19
9 g2248.t5 PRINTS PR00463 E-class P450 group I signature 421 431 2.3E-19
13 g2248.t5 PRINTS PR00385 P450 superfamily signature 422 431 9.5E-9
7 g2248.t5 PRINTS PR00463 E-class P450 group I signature 431 454 2.3E-19
11 g2248.t5 PRINTS PR00385 P450 superfamily signature 431 442 9.5E-9
1 g2248.t5 Pfam PF00067 Cytochrome P450 40 478 1.4E-93
17 g2248.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
20 g2248.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 23 -
16 g2248.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 24 69 -
19 g2248.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 88 -
18 g2248.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 89 486 -
23 g2248.t5 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 424 433 -
14 g2248.t5 SUPERFAMILY SSF48264 Cytochrome P450 52 484 1.19E-108
21 g2248.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 19 -
22 g2248.t5 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

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