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.t1 TTS g2904.t1 21051863 21051863
chr_3 g2904 g2904.t1 isoform g2904.t1 21051984 21054077
chr_3 g2904 g2904.t1 exon g2904.t1.exon1 21051984 21052164
chr_3 g2904 g2904.t1 cds g2904.t1.CDS1 21051984 21052164
chr_3 g2904 g2904.t1 exon g2904.t1.exon2 21052307 21052446
chr_3 g2904 g2904.t1 cds g2904.t1.CDS2 21052307 21052446
chr_3 g2904 g2904.t1 exon g2904.t1.exon3 21052525 21053035
chr_3 g2904 g2904.t1 cds g2904.t1.CDS3 21052525 21053035
chr_3 g2904 g2904.t1 exon g2904.t1.exon4 21053183 21053528
chr_3 g2904 g2904.t1 cds g2904.t1.CDS4 21053183 21053528
chr_3 g2904 g2904.t1 exon g2904.t1.exon5 21053649 21053915
chr_3 g2904 g2904.t1 cds g2904.t1.CDS5 21053649 21053915
chr_3 g2904 g2904.t1 exon g2904.t1.exon6 21054071 21054077
chr_3 g2904 g2904.t1 cds g2904.t1.CDS6 21054071 21054077
chr_3 g2904 g2904.t1 TSS g2904.t1 21054159 21054159

Sequences

>g2904.t1 Gene=g2904 Length=1452
ATGAAATTGCGAAAAGTGCGTGCGAGTGTTCCACCGGGTCCATGGAGAAATCATATTCCT
TTTATTGGCTATTTACCCTTCTTAAATCCAACGCAACCACACAAAAGTTTATTTGAGCTC
TCAAAAAAGTATGGCAATATATTTAGTCTGCAGCTGGGTTCAATTTTCACTGTTATTCTC
GCTGATTCAACTCTCATTCGTGAGGCATTTCGACGAGATGAATTTAGTGGGCGAGCTCCT
CTCTATGTCACACATGGTATATTTCACGGATATGGCATAATATGCACAGAAGGTGAATTT
TGGAAAGATCAGCGTGCATTAGTTCACAAATTTCTACGCGACATGGGAATGATAAAATTC
GGTATAAAACGTGAAGCAATGCAACAGCGTATAATGGAGGGAATCAATTTATGCATTTTG
GAAATAGAGAAACTCAGTTCGCAAACAATAAATCCTTTTAATATTTTAATTAACACTGTG
GGAAATATTGTGAATGATTTTGTATTTGGCATTAAATACGATTGGAATGCTGACACTTGG
AAGTATTTAAAATATTTACAAGAGGAAGGTATTAAACTTGTAGGACTCAATGCGGGAGCA
AATTTCCTACCAATTTTGAGATATTTGCCCAACAACAGACGAAACATGAATTTCGTTTTA
ACTGGCAAAGAAGAGCAACATAAAGTTTATGATACCATAGTAGATAATTGTATGAGAGCA
TTGGACACTTCTATGGAGTATCGCGACTGCATTCTGAAAAGATTTTTATTAGAGAAACGT
GACCGAGAAAGGCGTCATGATGAATTAGCTGGAAACTGTTCTCGCGTACAACTGAATCAT
CTTCTTGCTGACATTTTTGGAGCTTCATTGGATACAACATTAGGAACGCTTCGTTGGTAT
CTTCTTCTTATTGCCATAAACAATGAGCATCAAGATCAAATTTACGATGAAATGCAGAAG
AATGGAATTAAAGAAACCTACTTTTTGGATGACATTGAGAGCATGCCATATTTAAGGGCA
ACAATTGCAGAGGCTATGAGATTAAAATCGGTTGTACCTTGTGGCATTCCGCATGGTAAT
TCAAATCAACAAACCACTTTGGGCGGTTATACAATACCAAAAAATACGATGATTTTACCG
CTACAATATGCCGTTCACATGAACGAAAATTTATGGCCACAACCGCAAATCTACAATCCC
AATCGATTCATTGATGAAGATGGCAAATTTTTCACATCTTCACATTTTATACCGTTTCAA
GCAGGAAAGAGGATGTGTCTTGGCGAGGAACTGGCAAAAATGTTTTTAAATCTTTTTGCT
GCCAATATTTTATTGAATTTCAACATTAAATTGGGTAGCGATCCTGACAAGCTGGATTTA
TCCGGAATTTGTGGCTTAACCTTAAGTCCTCCAGAACATTTTTTGATATTTGAAAAACGT
CAGAGAAACTAA

>g2904.t1 Gene=g2904 Length=483
MKLRKVRASVPPGPWRNHIPFIGYLPFLNPTQPHKSLFELSKKYGNIFSLQLGSIFTVIL
ADSTLIREAFRRDEFSGRAPLYVTHGIFHGYGIICTEGEFWKDQRALVHKFLRDMGMIKF
GIKREAMQQRIMEGINLCILEIEKLSSQTINPFNILINTVGNIVNDFVFGIKYDWNADTW
KYLKYLQEEGIKLVGLNAGANFLPILRYLPNNRRNMNFVLTGKEEQHKVYDTIVDNCMRA
LDTSMEYRDCILKRFLLEKRDRERRHDELAGNCSRVQLNHLLADIFGASLDTTLGTLRWY
LLLIAINNEHQDQIYDEMQKNGIKETYFLDDIESMPYLRATIAEAMRLKSVVPCGIPHGN
SNQQTTLGGYTIPKNTMILPLQYAVHMNENLWPQPQIYNPNRFIDEDGKFFTSSHFIPFQ
AGKRMCLGEELAKMFLNLFAANILLNFNIKLGSDPDKLDLSGICGLTLSPPEHFLIFEKR
QRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g2904.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 2 483 0
2 g2904.t1 PANTHER PTHR24300 CYTOCHROME P450 508A4-RELATED 7 476 0
3 g2904.t1 PANTHER PTHR24300:SF308 CYTOCHROME P450 306A1 7 476 0
4 g2904.t1 PRINTS PR00463 E-class P450 group I signature 41 60 0
8 g2904.t1 PRINTS PR00463 E-class P450 group I signature 159 177 0
9 g2904.t1 PRINTS PR00463 E-class P450 group I signature 277 294 0
14 g2904.t1 PRINTS PR00385 P450 superfamily signature 288 305 0
5 g2904.t1 PRINTS PR00463 E-class P450 group I signature 297 323 0
6 g2904.t1 PRINTS PR00463 E-class P450 group I signature 339 357 0
12 g2904.t1 PRINTS PR00385 P450 superfamily signature 340 351 0
11 g2904.t1 PRINTS PR00463 E-class P450 group I signature 381 405 0
10 g2904.t1 PRINTS PR00463 E-class P450 group I signature 416 426 0
13 g2904.t1 PRINTS PR00385 P450 superfamily signature 417 426 0
7 g2904.t1 PRINTS PR00463 E-class P450 group I signature 426 449 0
15 g2904.t1 PRINTS PR00385 P450 superfamily signature 426 437 0
1 g2904.t1 Pfam PF00067 Cytochrome P450 12 475 0
16 g2904.t1 SUPERFAMILY SSF48264 Cytochrome P450 11 480 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

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