Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 306a1.

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 g2904 g2904.t2 TTS g2904.t2 21051863 21051863
chr_3 g2904 g2904.t2 isoform g2904.t2 21051984 21054077
chr_3 g2904 g2904.t2 exon g2904.t2.exon1 21051984 21052164
chr_3 g2904 g2904.t2 cds g2904.t2.CDS1 21051984 21052164
chr_3 g2904 g2904.t2 exon g2904.t2.exon2 21052307 21052446
chr_3 g2904 g2904.t2 cds g2904.t2.CDS2 21052307 21052446
chr_3 g2904 g2904.t2 exon g2904.t2.exon3 21052525 21053035
chr_3 g2904 g2904.t2 cds g2904.t2.CDS3 21052525 21053035
chr_3 g2904 g2904.t2 exon g2904.t2.exon4 21053183 21053528
chr_3 g2904 g2904.t2 cds g2904.t2.CDS4 21053183 21053528
chr_3 g2904 g2904.t2 exon g2904.t2.exon5 21053649 21053983
chr_3 g2904 g2904.t2 cds g2904.t2.CDS5 21053649 21053983
chr_3 g2904 g2904.t2 exon g2904.t2.exon6 21054071 21054077
chr_3 g2904 g2904.t2 cds g2904.t2.CDS6 21054071 21054072
chr_3 g2904 g2904.t2 TSS g2904.t2 21054159 21054159

Sequences

>g2904.t2 Gene=g2904 Length=1520
ATGAAATGTCGTTTTTCTTCATCACTCTCTTATCTTTTGTGCTCTTCTTCCTGCTTATTT
TTTACCTTTTTAAAGTGCGAAAAGTGCGTGCGAGTGTTCCACCGGGTCCATGGAGAAATC
ATATTCCTTTTATTGGCTATTTACCCTTCTTAAATCCAACGCAACCACACAAAAGTTTAT
TTGAGCTCTCAAAAAAGTATGGCAATATATTTAGTCTGCAGCTGGGTTCAATTTTCACTG
TTATTCTCGCTGATTCAACTCTCATTCGTGAGGCATTTCGACGAGATGAATTTAGTGGGC
GAGCTCCTCTCTATGTCACACATGGTATATTTCACGGATATGGCATAATATGCACAGAAG
GTGAATTTTGGAAAGATCAGCGTGCATTAGTTCACAAATTTCTACGCGACATGGGAATGA
TAAAATTCGGTATAAAACGTGAAGCAATGCAACAGCGTATAATGGAGGGAATCAATTTAT
GCATTTTGGAAATAGAGAAACTCAGTTCGCAAACAATAAATCCTTTTAATATTTTAATTA
ACACTGTGGGAAATATTGTGAATGATTTTGTATTTGGCATTAAATACGATTGGAATGCTG
ACACTTGGAAGTATTTAAAATATTTACAAGAGGAAGGTATTAAACTTGTAGGACTCAATG
CGGGAGCAAATTTCCTACCAATTTTGAGATATTTGCCCAACAACAGACGAAACATGAATT
TCGTTTTAACTGGCAAAGAAGAGCAACATAAAGTTTATGATACCATAGTAGATAATTGTA
TGAGAGCATTGGACACTTCTATGGAGTATCGCGACTGCATTCTGAAAAGATTTTTATTAG
AGAAACGTGACCGAGAAAGGCGTCATGATGAATTAGCTGGAAACTGTTCTCGCGTACAAC
TGAATCATCTTCTTGCTGACATTTTTGGAGCTTCATTGGATACAACATTAGGAACGCTTC
GTTGGTATCTTCTTCTTATTGCCATAAACAATGAGCATCAAGATCAAATTTACGATGAAA
TGCAGAAGAATGGAATTAAAGAAACCTACTTTTTGGATGACATTGAGAGCATGCCATATT
TAAGGGCAACAATTGCAGAGGCTATGAGATTAAAATCGGTTGTACCTTGTGGCATTCCGC
ATGGTAATTCAAATCAACAAACCACTTTGGGCGGTTATACAATACCAAAAAATACGATGA
TTTTACCGCTACAATATGCCGTTCACATGAACGAAAATTTATGGCCACAACCGCAAATCT
ACAATCCCAATCGATTCATTGATGAAGATGGCAAATTTTTCACATCTTCACATTTTATAC
CGTTTCAAGCAGGAAAGAGGATGTGTCTTGGCGAGGAACTGGCAAAAATGTTTTTAAATC
TTTTTGCTGCCAATATTTTATTGAATTTCAACATTAAATTGGGTAGCGATCCTGACAAGC
TGGATTTATCCGGAATTTGTGGCTTAACCTTAAGTCCTCCAGAACATTTTTTGATATTTG
AAAAACGTCAGAGAAACTAA

>g2904.t2 Gene=g2904 Length=504
MSFFFITLLSFVLFFLLIFYLFKVRKVRASVPPGPWRNHIPFIGYLPFLNPTQPHKSLFE
LSKKYGNIFSLQLGSIFTVILADSTLIREAFRRDEFSGRAPLYVTHGIFHGYGIICTEGE
FWKDQRALVHKFLRDMGMIKFGIKREAMQQRIMEGINLCILEIEKLSSQTINPFNILINT
VGNIVNDFVFGIKYDWNADTWKYLKYLQEEGIKLVGLNAGANFLPILRYLPNNRRNMNFV
LTGKEEQHKVYDTIVDNCMRALDTSMEYRDCILKRFLLEKRDRERRHDELAGNCSRVQLN
HLLADIFGASLDTTLGTLRWYLLLIAINNEHQDQIYDEMQKNGIKETYFLDDIESMPYLR
ATIAEAMRLKSVVPCGIPHGNSNQQTTLGGYTIPKNTMILPLQYAVHMNENLWPQPQIYN
PNRFIDEDGKFFTSSHFIPFQAGKRMCLGEELAKMFLNLFAANILLNFNIKLGSDPDKLD
LSGICGLTLSPPEHFLIFEKRQRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g2904.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 22 504 3.5E-108
2 g2904.t2 PANTHER PTHR24300 CYTOCHROME P450 508A4-RELATED 6 497 3.3E-162
3 g2904.t2 PANTHER PTHR24300:SF308 CYTOCHROME P450 306A1 6 497 3.3E-162
11 g2904.t2 PRINTS PR00463 E-class P450 group I signature 62 81 2.2E-40
4 g2904.t2 PRINTS PR00463 E-class P450 group I signature 180 198 2.2E-40
8 g2904.t2 PRINTS PR00463 E-class P450 group I signature 298 315 2.2E-40
12 g2904.t2 PRINTS PR00385 P450 superfamily signature 309 326 3.3E-10
9 g2904.t2 PRINTS PR00463 E-class P450 group I signature 318 344 2.2E-40
7 g2904.t2 PRINTS PR00463 E-class P450 group I signature 360 378 2.2E-40
15 g2904.t2 PRINTS PR00385 P450 superfamily signature 361 372 3.3E-10
6 g2904.t2 PRINTS PR00463 E-class P450 group I signature 402 426 2.2E-40
5 g2904.t2 PRINTS PR00463 E-class P450 group I signature 437 447 2.2E-40
14 g2904.t2 PRINTS PR00385 P450 superfamily signature 438 447 3.3E-10
10 g2904.t2 PRINTS PR00463 E-class P450 group I signature 447 470 2.2E-40
13 g2904.t2 PRINTS PR00385 P450 superfamily signature 447 458 3.3E-10
1 g2904.t2 Pfam PF00067 Cytochrome P450 33 496 5.9E-80
21 g2904.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 29 -
22 g2904.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
23 g2904.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 21 -
24 g2904.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 22 29 -
20 g2904.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 504 -
18 g2904.t2 SUPERFAMILY SSF48264 Cytochrome P450 32 501 5.5E-96
16 g2904.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 22 -
17 g2904.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 65 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: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. There were no conditions that were differentially expressed