General information for g570.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Probable cytochrome P450 4s3.
Parent gene
- The parent gene g570 is located on chr_3: 4180350..4181365 (+ strand)
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 | g570 | g570.t1 | TSS | g570.t1 | 4180316 | 4180316 |
| chr_3 | g570 | g570.t1 | isoform | g570.t1 | 4180350 | 4181365 |
| chr_3 | g570 | g570.t1 | exon | g570.t1.exon1 | 4180350 | 4180896 |
| chr_3 | g570 | g570.t1 | cds | g570.t1.CDS1 | 4180350 | 4180896 |
| chr_3 | g570 | g570.t1 | exon | g570.t1.exon2 | 4180957 | 4181026 |
| chr_3 | g570 | g570.t1 | cds | g570.t1.CDS2 | 4180957 | 4181026 |
| chr_3 | g570 | g570.t1 | exon | g570.t1.exon3 | 4181089 | 4181365 |
| chr_3 | g570 | g570.t1 | cds | g570.t1.CDS3 | 4181089 | 4181365 |
| chr_3 | g570 | g570.t1 | TTS | g570.t1 | 4182183 | 4182183 |
Sequences
>g570.t1 Gene=g570 Length=894
ATGGATTTATTACTATATTTAATCATTCTCATGTTTAGTGCCATGTTTTGGTATAGAAAG
AAATATGGACAAAGAAATGAGTTACTCGAAAAATTTCAAGCACCAGAAAAATCTATGCCA
ATATTGAGACATTCATTTATGCTCATCAATAAAACACCAAGTCAAATTTTGAATGTCTTT
TCTGAATTAGCAGAGAAATGTGGACCTGTTTGGAGATTTGACTTCAGTCCATTTACTTCA
ATGATCACAGTTCATGATCCAAAAATTTTGGAACAAATTCTTTCGAGTCAGAAATTAATC
GACAAATCTGATGGTTATGATAACATTTCAAATTGGTTAGGGAATGGATTATTAATGAGC
ACAGGAGCCAAATGGCATCAACGAAGAAAAATTATCACGCCGACTTTTCATTTCAAAATA
TTGGAAGAATTTGTGGAAATTATGAATAAACATGGAAATGTTTTTGTGAAGAAATTAAAG
AAATATAATGGAAGGCCGATTGATGTTTTTCCACTTGTGTCACTTTATGCACTTGATGTA
ATATGTGAATCTGCAATGGGCTATCAGCTAAATGCTCAAATTGATGACACATCTGAATAT
GTGAAGGCAGTAAAAGAAATGGCTTCAATCGCATTCTTAAAAAGCTTCAATGTGATAAAA
AGAATAAAGTTCCTTTATCAATTCTCAAACACTTGTAAACGTGAAAAAGTTGTTGTTGAA
AAACTGCATGATTTCACTAACTCTGTCATCAGCGCGAGACGTAAATATTTGAAACAACGT
GAATTTATGGCTGATAATGAAAAAAACAAAGATGATAATGATGAAATTGGAATGAAAAAG
AAAACTGCATTTTTAGCCTTTTGTTACAAGTTCAAGTTAATGGACAATCATTAA
>g570.t1 Gene=g570 Length=297
MDLLLYLIILMFSAMFWYRKKYGQRNELLEKFQAPEKSMPILRHSFMLINKTPSQILNVF
SELAEKCGPVWRFDFSPFTSMITVHDPKILEQILSSQKLIDKSDGYDNISNWLGNGLLMS
TGAKWHQRRKIITPTFHFKILEEFVEIMNKHGNVFVKKLKKYNGRPIDVFPLVSLYALDV
ICESAMGYQLNAQIDDTSEYVKAVKEMASIAFLKSFNVIKRIKFLYQFSNTCKREKVVVE
KLHDFTNSVISARRKYLKQREFMADNEKNKDDNDEIGMKKKTAFLAFCYKFKLMDNH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g570.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 18 | 284 | 4.8E-41 |
| 2 | g570.t1 | PANTHER | PTHR24291:SF143 | CYTOCHROME P450 4D1-RELATED | 6 | 286 | 1.4E-66 |
| 3 | g570.t1 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 6 | 286 | 1.4E-66 |
| 5 | g570.t1 | PRINTS | PR00464 | Group II E-class P450 signature | 122 | 142 | 4.8E-5 |
| 4 | g570.t1 | PRINTS | PR00464 | Group II E-class P450 signature | 175 | 193 | 4.8E-5 |
| 1 | g570.t1 | Pfam | PF00067 | Cytochrome P450 | 38 | 269 | 2.9E-34 |
| 9 | g570.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 10 | g570.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g570.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 12 | - |
| 12 | g570.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 16 | - |
| 8 | g570.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 297 | - |
| 6 | g570.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 38 | 266 | 1.44E-37 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g570/g570.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g570.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:0004497 | monooxygenase activity | 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.
