Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 CYP12A2.

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 g4970 g4970.t4 TSS g4970.t4 6210086 6210086
chr_2 g4970 g4970.t4 isoform g4970.t4 6210139 6211521
chr_2 g4970 g4970.t4 exon g4970.t4.exon1 6210139 6210362
chr_2 g4970 g4970.t4 cds g4970.t4.CDS1 6210139 6210362
chr_2 g4970 g4970.t4 exon g4970.t4.exon2 6210429 6210492
chr_2 g4970 g4970.t4 cds g4970.t4.CDS2 6210429 6210492
chr_2 g4970 g4970.t4 exon g4970.t4.exon3 6210552 6210781
chr_2 g4970 g4970.t4 cds g4970.t4.CDS3 6210552 6210781
chr_2 g4970 g4970.t4 exon g4970.t4.exon4 6211044 6211319
chr_2 g4970 g4970.t4 cds g4970.t4.CDS4 6211044 6211319
chr_2 g4970 g4970.t4 exon g4970.t4.exon5 6211379 6211521
chr_2 g4970 g4970.t4 cds g4970.t4.CDS5 6211379 6211520
chr_2 g4970 g4970.t4 TTS g4970.t4 6212308 6212308

Sequences

>g4970.t4 Gene=g4970 Length=937
ATGTTGATCCGCCAGACTGCTTCTATTTCTCGACGTCTTTTGACGACTACATCCACGTCA
TTCAGCCTTGACAATCAATTGAGTCAAAATAAGTCATTCTCTGAAATACCTTCTATTTCA
GCTCTTAAAGTTGTGGTTCGAAATATACCAGGTGGAAAATACTATAATAAATCTATGACA
CAGCTTCATGAGCTTTTATATGATGAATATGGATCTATATTGAGATTTCCTGGATTATTT
GGTCGACCACCAGTAGTTTTTGCATATGACGCAAAAGATTTTGAAAAAGTATATAGGAAT
GAAGGTGTATGGCCAGAGAGATTAAACTTGGATTCATTAGTTTATTATAGAAAAACAAAG
CGTTCTGACATTTATGATAAATTTGCTGGTTTATTTTCTTCTCAAGGTGAAGAATGGCAC
AGTATGAGAACAATTACCAATCCGATTTTGATGCAACCAAAAACTATGAAACTTTATTGC
ACACAAGTTGATGAAATAGCGAAGGAATTTGTCGGAATCATGCGGAAATTAAGAGATGAG
AAATGTGAAATGCCTGCTGATTTTAGCAATTACATAAATTCATGGTCGTTAGAGTCAGTT
GTTGCTGTTGCTCTAGAAAGACGTTTAAATATATTGAGTGGGTCTTCTAATGATGAAAAA
GCTCAAGAGCTCATCAAAAATATTAGAATATTTTTTGAAAAATCTTTTGAATTTGATGGA
CTTCCTTCAGTTTGGCGTTACTATGAAACAAAAAGTTTCAAAGATTTCCTAAAAGTTTAT
GATACGATAACTAATATTGTGCTGTATTTTATTGAAGAAGCAGTAGCAAGAATAGAATCA
AATCCTTCTTTATCATCTAACGAAGATGGTATACTGAGAAAACTTTTAAAAATTGATAAA
AAAGCTGCTGTTGTTATGGCAAGCGACATGCTATTAG

>g4970.t4 Gene=g4970 Length=312
MLIRQTASISRRLLTTTSTSFSLDNQLSQNKSFSEIPSISALKVVVRNIPGGKYYNKSMT
QLHELLYDEYGSILRFPGLFGRPPVVFAYDAKDFEKVYRNEGVWPERLNLDSLVYYRKTK
RSDIYDKFAGLFSSQGEEWHSMRTITNPILMQPKTMKLYCTQVDEIAKEFVGIMRKLRDE
KCEMPADFSNYINSWSLESVVAVALERRLNILSGSSNDEKAQELIKNIRIFFEKSFEFDG
LPSVWRYYETKSFKDFLKVYDTITNIVLYFIEEAVARIESNPSLSSNEDGILRKLLKIDK
KAAVVMASDMLL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4970.t4 Gene3D G3DSA:1.10.630.10 Cytochrome p450 25 312 0
2 g4970.t4 PANTHER PTHR24291:SF155 CYTOCHROME P450 301B1 30 311 0
3 g4970.t4 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 30 311 0
1 g4970.t4 Pfam PF00067 Cytochrome P450 54 297 0
4 g4970.t4 SUPERFAMILY SSF48264 Cytochrome P450 49 298 0

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. There were no conditions that were differentially expressed