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 g4971 g4971.t1 TSS g4971.t1 6214628 6214628
chr_2 g4971 g4971.t1 isoform g4971.t1 6214668 6216554
chr_2 g4971 g4971.t1 exon g4971.t1.exon1 6214668 6214967
chr_2 g4971 g4971.t1 cds g4971.t1.CDS1 6214668 6214967
chr_2 g4971 g4971.t1 exon g4971.t1.exon2 6215019 6215248
chr_2 g4971 g4971.t1 cds g4971.t1.CDS2 6215019 6215248
chr_2 g4971 g4971.t1 exon g4971.t1.exon3 6215305 6215580
chr_2 g4971 g4971.t1 cds g4971.t1.CDS3 6215305 6215580
chr_2 g4971 g4971.t1 exon g4971.t1.exon4 6215639 6215784
chr_2 g4971 g4971.t1 cds g4971.t1.CDS4 6215639 6215784
chr_2 g4971 g4971.t1 exon g4971.t1.exon5 6215849 6215862
chr_2 g4971 g4971.t1 cds g4971.t1.CDS5 6215849 6215862
chr_2 g4971 g4971.t1 exon g4971.t1.exon6 6215923 6216338
chr_2 g4971 g4971.t1 cds g4971.t1.CDS6 6215923 6216338
chr_2 g4971 g4971.t1 exon g4971.t1.exon7 6216392 6216554
chr_2 g4971 g4971.t1 cds g4971.t1.CDS7 6216392 6216554
chr_2 g4971 g4971.t1 TTS g4971.t1 6216616 6216616

Sequences

>g4971.t1 Gene=g4971 Length=1545
ATGTCAAAAAAAATTTTAGTCCAGCAATCTGTTTTTATCTTTCGACGCTTACTTAATACT
ACGTCTACTTCATTTAACCTTGATGTTCAATCGACTGATGTAAAACCTTTTTCACAAGTT
CCATCATTGTCTGCATTTGAAATCATAGCAAGAAATTTACCAGGTGGTAAATTTTATAAC
AAATCAATGAAAGATTTGCACTTAATAATGAATGCTGAGTTCGGCAATATAGTTCGATTT
GCTGGTATATTTGGCCGACCACCATTATTATTTGTTTATGATGCAAATGACTTCGAAAAG
ACATTGAGAACTGAAGGTGTATGGCCAGAAAGAATTGCATTAGAATCACTTGCTTACTAT
AGGAAAACAAAGCGACCAGATATTTACAATGAATATTCTGGCTTGTTTTCAGCTCAGGGA
GAAGAATGGCATAAAATGAGAACAATAACTAATCCGATTTTGATGCAACCAAAAATTATT
AAACTTTATTGCAAACAAGTTGATGAAATAGCAAAGGAATTTGTTGGAATCATGCGGAAA
TTAAGGGATGAGAAATGTGAAATGCCTGCTGATTTTAGCAATTACATAAATTCATGGTCG
TTAGAGTCTATTGTTGCTATTGCTTTAGAAAGACGTTTAAATATACTGAGTGGGTCCTCA
AATGATGAAAAAGCTCAAGAGCTCATCAAAAATATTCGTCTCTTCTTTGAAAAATCTTTC
CTTTATGATGTACTTCCTTCAGTTTGGCGTTACTATGAAACGAAAGGTTTCAAGAATTTC
CTGAAAGTATATGATACAATAACAAACATTGTGCTTCACTACATAGATATTGCAATAAAG
GAAATGGAAAAAAGTGAGTCATCTTCTTTGAATCATGAAGATAGCATATTACGGAAACTT
TTGAAGATTGACAAAAAAGCGGCAGTTGTGATGGCGAGTGATATGTTGTTAGCTGGTGTT
GATACAACTGCCACGGCAACAATAAACATTCTTTATTGTCTTGCAAAAAATCCTGAGAAA
CAAGACATTCTTCGAAAGGAATTGAACGTCATTTTGCCATCAAAAGATACAAAAATTACT
GCGCAAAATATGCAGAACATGCCTTATTTGCGAGCTGTGATCAAAGAAACATTGAGAATT
ATGCCAGTCGTTAGTGGAACAGCTCGAAAAACTGGTCAAGATGTCAACCTTTCAGGATAT
AAAGTACCTGCTGGTACACATGTAATTATGGTGCCTATATTTGAAATGAATGACGAAAAG
CAATATCCACAACCAGAAAAGTATATGCCTGAACGATGGCTCCGTGAAAATAACGACCCA
CAATGTCCTCATGCTAAAAATGCCAATCCATTTACATTTCTTCCATTTGGTTTTGGAAGC
AGAATGTGCATTGGACGTCGTTTGGCTGAACTGGAAATTGAAGTGTTGATTGCAAATGTC
ATCAGAAATTTTAAGCTTGAATGGCATCATCCTGATATGAAAATTAAAAGTACTTTTGTA
AACCTCCCAATTTCAGATTTAAAATTTAAAGTTATCGATGCATAA

>g4971.t1 Gene=g4971 Length=514
MSKKILVQQSVFIFRRLLNTTSTSFNLDVQSTDVKPFSQVPSLSAFEIIARNLPGGKFYN
KSMKDLHLIMNAEFGNIVRFAGIFGRPPLLFVYDANDFEKTLRTEGVWPERIALESLAYY
RKTKRPDIYNEYSGLFSAQGEEWHKMRTITNPILMQPKIIKLYCKQVDEIAKEFVGIMRK
LRDEKCEMPADFSNYINSWSLESIVAIALERRLNILSGSSNDEKAQELIKNIRLFFEKSF
LYDVLPSVWRYYETKGFKNFLKVYDTITNIVLHYIDIAIKEMEKSESSSLNHEDSILRKL
LKIDKKAAVVMASDMLLAGVDTTATATINILYCLAKNPEKQDILRKELNVILPSKDTKIT
AQNMQNMPYLRAVIKETLRIMPVVSGTARKTGQDVNLSGYKVPAGTHVIMVPIFEMNDEK
QYPQPEKYMPERWLRENNDPQCPHAKNANPFTFLPFGFGSRMCIGRRLAELEIEVLIANV
IRNFKLEWHHPDMKIKSTFVNLPISDLKFKVIDA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4971.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 29 513 2.8E-119
2 g4971.t1 PANTHER PTHR24291:SF155 CYTOCHROME P450 301B1 32 501 5.5E-119
3 g4971.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 32 501 5.5E-119
4 g4971.t1 PRINTS PR00385 P450 superfamily signature 318 335 1.9E-12
9 g4971.t1 PRINTS PR00465 E-class P450 group IV signature 367 383 3.7E-16
5 g4971.t1 PRINTS PR00385 P450 superfamily signature 372 383 1.9E-12
12 g4971.t1 PRINTS PR00465 E-class P450 group IV signature 400 414 3.7E-16
8 g4971.t1 PRINTS PR00465 E-class P450 group IV signature 416 434 3.7E-16
11 g4971.t1 PRINTS PR00465 E-class P450 group IV signature 447 463 3.7E-16
7 g4971.t1 PRINTS PR00385 P450 superfamily signature 454 463 1.9E-12
6 g4971.t1 PRINTS PR00385 P450 superfamily signature 463 474 1.9E-12
10 g4971.t1 PRINTS PR00465 E-class P450 group IV signature 463 481 3.7E-16
1 g4971.t1 Pfam PF00067 Cytochrome P450 70 496 2.8E-82
14 g4971.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 456 465 -
13 g4971.t1 SUPERFAMILY SSF48264 Cytochrome P450 67 511 3.01E-87

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

Pathway

This gene does not belong to any 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