Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 313a4.

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_1 g13590 g13590.t1 isoform g13590.t1 31109707 31111506
chr_1 g13590 g13590.t1 exon g13590.t1.exon1 31109707 31110576
chr_1 g13590 g13590.t1 cds g13590.t1.CDS1 31109707 31110576
chr_1 g13590 g13590.t1 exon g13590.t1.exon2 31110866 31111262
chr_1 g13590 g13590.t1 cds g13590.t1.CDS2 31110866 31111262
chr_1 g13590 g13590.t1 exon g13590.t1.exon3 31111328 31111506
chr_1 g13590 g13590.t1 cds g13590.t1.CDS3 31111328 31111506
chr_1 g13590 g13590.t1 TSS g13590.t1 NA NA
chr_1 g13590 g13590.t1 TTS g13590.t1 NA NA

Sequences

>g13590.t1 Gene=g13590 Length=1446
ATGACGATTTTTCTGAGTTTAGTTCTTACTTTATTTATAGTCTCAGTGATTTCTTACATT
AGTTATCGTTGGAAAAGAAGAAGATTTTATGAATTAGCAAGTAAAATTCCGGGTCCTGAA
GGTTTACCATTATTAGGAGAAATTCCTAATTTTGCAACCGTAAATTTCAAAGATTATGCA
AAGAAATTGTTAAGTTATGCAGATCCGAATAGTACTTTGATAAAAGGCTGGTTTGGTCCT
TTACTTATGATAATAACTGAAGATGCTGATTGCATTCATACATTATTTAATTCACCAAAT
TCTATGACAAAGCCTTGGTATTTTTATAATGCAATTTACATGGATCAAGGATTATTAGTG
ACAAATGGTGAACAATATGATCGACATAGAAAAATTCTTAATAAATCTTTTACACCCTCA
ATGTTGCAAATTTTTATTCCAACATTTTGTAATAAATCACAAATTTGTATTGATCACTTA
GAAAAGCATTTAGATGGAATTCCTATTGATATTTATGATTATGTTGGAACTTGCACATTA
GAAGTTTTTTGTTTTGGTCATTTAAATTATGATAGAGACTTTTATGGAAGTCATATGATT
GAATTAATTGAAAAGACAAGACCATTAGTTATGAAAAAAATGTTCTCACCGTGGTATAAT
TTTAAACCTCTCTATAAACTGACTTCAATTTCTCGTCAAATGGAACAATATTATCAAGTT
TTAGTTGATATTATTGAGGAAGTGAAGCAAATTCATCGAGTCTCACCAAACACAGATATG
AAGGACACTGTGATAAATGTTTTGATGAATTCCAAATATAAATTTGATGATGATGAAATA
AGAGATGAAATAGCAACTTTCATTTTTGCTGGTTATGAAACAACAGCGATAGCCTTAGCA
TCAATATTTTTAATGCTTGCAATGCACAAAGATTGTCAACAAAAATTAATTGATGAAATT
GATGAGATTCTCACATCAGATGATGAAATTACAAACGAAGATTTATCAAAGTTTACTTAC
ACAGATATGGTAATTAAGGAATCATTGAGATTATTTGGGCCTGGTGGTGCAATTGGTCGA
CAAACGACAGACGAAATGGAAGTTGGTGGATATACTGTACCTAAAGGAGCTTGTTTTATT
TTGTCAGTCTATGGAATGCATAGAAGTCCAAAATATTGGGGAAATGATGCACATTTATTT
AAACCGGAAAGATTTGAGCCAGAAAGAATTAAAAATGTTAATCCTCATGCTTATGCTCCA
TTTTCAGGAGGAAAAAGAATTTGTCCTGGTTTCAAATATTCAATAATGTTTATGAAAATT
TTCTTAGCAAAATTCTTCAAAACTTACACAGTCGATACAAAATTAAAATATGAAGATATT
TCATTAGAAATGACACCAACAATGGTTATAGCACAAAAATATATGGTAACACTTAAGAAG
AGATAA

>g13590.t1 Gene=g13590 Length=481
MTIFLSLVLTLFIVSVISYISYRWKRRRFYELASKIPGPEGLPLLGEIPNFATVNFKDYA
KKLLSYADPNSTLIKGWFGPLLMIITEDADCIHTLFNSPNSMTKPWYFYNAIYMDQGLLV
TNGEQYDRHRKILNKSFTPSMLQIFIPTFCNKSQICIDHLEKHLDGIPIDIYDYVGTCTL
EVFCFGHLNYDRDFYGSHMIELIEKTRPLVMKKMFSPWYNFKPLYKLTSISRQMEQYYQV
LVDIIEEVKQIHRVSPNTDMKDTVINVLMNSKYKFDDDEIRDEIATFIFAGYETTAIALA
SIFLMLAMHKDCQQKLIDEIDEILTSDDEITNEDLSKFTYTDMVIKESLRLFGPGGAIGR
QTTDEMEVGGYTVPKGACFILSVYGMHRSPKYWGNDAHLFKPERFEPERIKNVNPHAYAP
FSGGKRICPGFKYSIMFMKIFLAKFFKTYTVDTKLKYEDISLEMTPTMVIAQKYMVTLKK
R

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g13590.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 19 481 4.3E-103
2 g13590.t1 PANTHER PTHR24291:SF140 CYTOCHROME P450 4C3-RELATED 8 481 2.9E-85
3 g13590.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 8 481 2.9E-85
4 g13590.t1 PRINTS PR00385 P450 superfamily signature 290 307 1.2E-6
7 g13590.t1 PRINTS PR00465 E-class P450 group IV signature 338 354 3.9E-5
5 g13590.t1 PRINTS PR00385 P450 superfamily signature 343 354 1.2E-6
8 g13590.t1 PRINTS PR00465 E-class P450 group IV signature 412 428 3.9E-5
6 g13590.t1 PRINTS PR00385 P450 superfamily signature 419 428 1.2E-6
9 g13590.t1 PRINTS PR00465 E-class P450 group IV signature 428 446 3.9E-5
1 g13590.t1 Pfam PF00067 Cytochrome P450 37 463 9.6E-81
14 g13590.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
15 g13590.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
16 g13590.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
18 g13590.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 18 -
13 g13590.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 283 -
17 g13590.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 284 307 -
12 g13590.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 308 481 -
21 g13590.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 421 430 -
10 g13590.t1 SUPERFAMILY SSF48264 Cytochrome P450 36 481 2.62E-100
19 g13590.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
20 g13590.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 284 306 -

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