Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 303a1.

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 g5129 g5129.t1 isoform g5129.t1 7214277 7216093
chr_2 g5129 g5129.t1 exon g5129.t1.exon1 7214277 7214649
chr_2 g5129 g5129.t1 cds g5129.t1.CDS1 7214277 7214649
chr_2 g5129 g5129.t1 exon g5129.t1.exon2 7214880 7215591
chr_2 g5129 g5129.t1 cds g5129.t1.CDS2 7214880 7215591
chr_2 g5129 g5129.t1 exon g5129.t1.exon3 7215652 7216093
chr_2 g5129 g5129.t1 cds g5129.t1.CDS3 7215652 7216093
chr_2 g5129 g5129.t1 TSS g5129.t1 NA NA
chr_2 g5129 g5129.t1 TTS g5129.t1 NA NA

Sequences

>g5129.t1 Gene=g5129 Length=1527
ATGTTATGCTTAGCAACAGCCGCACTCGTGACAATTTGGCTCATTCATTTTTTATATCAT
GAAATGAAAAAGCCAAAGAATTTTCCTCATGGACCATTCTTTTATCCAATAATTGGGAAT
ATAGTGAGTGTTGAAAAAGCTCGACGAAAGGCTGGCATGTTAACGAAAGGTATCATGGAA
ATTGCAAAGACAATTCCTGGAACGACTGACCTCATTGGTTTCAAAATTGGCAAAGATCGT
GTGGTTTTTACTCTTTCAACGAAAGCATTTATGGACATGTACACGAATCAAGATCTTGAT
GGTCGTCCTTTTGGCCCTTTCTATGAAACAAGAACATTTAATTTGCGACGTGGAATTTTG
TTTACTGATTCAGAATTTTGGCACGCTCAGCATCGCTTCATTTTACGTCAACTGAAAGAT
TTTGGTTTCACGCGAAAAGGCATGATCGAGATATGCGAGAACGAGGCAGAATTTTGTCTC
ACGGACTTTCGCAAAATGATTGAGAGTCATGGCGGAAAGAGTGCGACTGTCACAATGCCA
AACATCCTAGCTTCGTATATCCTGAACACGCTCTGGCAATTTATGGCTGGTATACGATAT
GACGTGGATAACGAAGAGCTTAGACATTTGCAGAATATGTTAAACGATTTATTCAAGTCT
ATTGACATGAAAGGTGCTTTATTTTCACATTTTCCTTTCCTACAATATATAGCACCAGAG
GCATCAGGCTATAATAGCTATGTTAGATTTCACAATAACTTGCATGCCTTCACGAAAAAA
GAAGTCGAAAGGCATAAGAAAAATTTCAATCCATCTGATGAACCACGTGATCTTATTGAT
GCATACCTTAAAGTTCTCTATTCAGGTGATGAATCTGGTAATAAAATTCATGAGTCTTTT
AGTGAATTGCAACTTCTGGCTGTGATGCTAGATATGTTTGTGGCAGGAACCGAAACAACT
GATAAAGTTTCCAATTTCATGCTGTTAAACATTGTTCGCAATCCACAAATACAACAGAGA
GCATATGATGAAATCATAAAAGTTGTGGGTAAAGATCGCTTGCCAAAATTATCAGACCGA
CCAAATCTTCCATATTGTGAGGCAATTGTTTTTGAGTCATTGCGAGCTTTTACATTTTAT
GCTATGGGAATTGCGCATCGTGCTATCGCAGACACAAAACTTTGTGGTTTTGACATTCCT
AAAAATACCATGTTAATCTCAATTTTTAATCCCCTCAATAGAGATCCGACTGTCTTCAAG
AATCCACAGACTTTTGATCCTGAAAACTTTCTCGATGCTAACGGCAAACTCTCAATTCCA
GACAAATTTTTTCCTTTTGCTCTTGGCAAACATCGTTGTATTGGTGAAGTACTCGGAAAG
AGCAATCTTTTTCTGTTTTGTACAACACTCATACAGAATTTTTATTTTGATGTGCCAAGT
GGTTGTGAAATGCCATCAGATGAGCCAATTGAAGGATGTACACCGACTGTAATTGATTAT
CAAGCTCGAATAACTTTAAGAAATTGA

>g5129.t1 Gene=g5129 Length=508
MLCLATAALVTIWLIHFLYHEMKKPKNFPHGPFFYPIIGNIVSVEKARRKAGMLTKGIME
IAKTIPGTTDLIGFKIGKDRVVFTLSTKAFMDMYTNQDLDGRPFGPFYETRTFNLRRGIL
FTDSEFWHAQHRFILRQLKDFGFTRKGMIEICENEAEFCLTDFRKMIESHGGKSATVTMP
NILASYILNTLWQFMAGIRYDVDNEELRHLQNMLNDLFKSIDMKGALFSHFPFLQYIAPE
ASGYNSYVRFHNNLHAFTKKEVERHKKNFNPSDEPRDLIDAYLKVLYSGDESGNKIHESF
SELQLLAVMLDMFVAGTETTDKVSNFMLLNIVRNPQIQQRAYDEIIKVVGKDRLPKLSDR
PNLPYCEAIVFESLRAFTFYAMGIAHRAIADTKLCGFDIPKNTMLISIFNPLNRDPTVFK
NPQTFDPENFLDANGKLSIPDKFFPFALGKHRCIGEVLGKSNLFLFCTTLIQNFYFDVPS
GCEMPSDEPIEGCTPTVIDYQARITLRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g5129.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 20 508 6.6E-104
2 g5129.t1 PANTHER PTHR24303 HEME-BINDING MONOOXYGENASE FAMILY 8 507 4.2E-186
3 g5129.t1 PANTHER PTHR24303:SF9 CYTOCHROME P450 303A1-RELATED 8 507 4.2E-186
9 g5129.t1 PRINTS PR00463 E-class P450 group I signature 186 204 3.4E-34
6 g5129.t1 PRINTS PR00463 E-class P450 group I signature 304 321 3.4E-34
13 g5129.t1 PRINTS PR00385 P450 superfamily signature 315 332 5.1E-6
7 g5129.t1 PRINTS PR00463 E-class P450 group I signature 324 350 3.4E-34
10 g5129.t1 PRINTS PR00463 E-class P450 group I signature 367 385 3.4E-34
12 g5129.t1 PRINTS PR00385 P450 superfamily signature 368 379 5.1E-6
4 g5129.t1 PRINTS PR00463 E-class P450 group I signature 408 432 3.4E-34
5 g5129.t1 PRINTS PR00463 E-class P450 group I signature 443 453 3.4E-34
14 g5129.t1 PRINTS PR00385 P450 superfamily signature 444 453 5.1E-6
8 g5129.t1 PRINTS PR00463 E-class P450 group I signature 453 476 3.4E-34
11 g5129.t1 PRINTS PR00385 P450 superfamily signature 453 464 5.1E-6
1 g5129.t1 Pfam PF00067 Cytochrome P450 29 488 2.3E-85
19 g5129.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
20 g5129.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
21 g5129.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 12 -
22 g5129.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
18 g5129.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 508 -
15 g5129.t1 SUPERFAMILY SSF48264 Cytochrome P450 29 507 2.36E-90
16 g5129.t1 SignalP_EUK SignalP-noTM SignalP-noTM 1 17 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5129/g5129.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5129.t1.fa.iupred3.txt does not exist

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