General information for g572.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 4d2.
Parent gene
- The parent gene g572 is located on chr_3: 4184432..4185425 (+ 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 | g572 | g572.t1 | TSS | g572.t1 | 4182982 | 4182982 |
| chr_3 | g572 | g572.t1 | isoform | g572.t1 | 4183035 | 4185009 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon1 | 4183035 | 4183575 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS1 | 4183035 | 4183575 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon2 | 4183642 | 4183711 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS2 | 4183642 | 4183711 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon3 | 4183774 | 4184102 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS3 | 4183774 | 4184102 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon4 | 4184164 | 4184360 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS4 | 4184164 | 4184360 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon5 | 4184577 | 4184782 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS5 | 4184577 | 4184782 |
| chr_3 | g572 | g572.t1 | exon | g572.t1.exon6 | 4184838 | 4185009 |
| chr_3 | g572 | g572.t1 | cds | g572.t1.CDS6 | 4184838 | 4185009 |
| chr_3 | g572 | g572.t1 | TTS | g572.t1 | 4185054 | 4185054 |
Sequences
>g572.t1 Gene=g572 Length=1515
ATGAGTGCAGTGGCATTATTTTTAATCTTTATCACTGGTGTTTATTTTTGGTATCAAGAA
AAGTATAAACGATATAATGAACTTATGGATAAAATTCCATGCGCAAAACCTCATCCGATA
TTAAATCACTTACTTTATTTTATTAACAAAAGACCAGGTGAAATTTTTATAATTCTTGAA
AAAATGGCAAAAGATCATGGACCAGTTTGGAAATTTCAAATTCCACTCAGTGAACAAATT
GTAGTTCATGATCCGAAAATCGTTGAGGAAATTTTATTGAGTCAAAAAATTATTGACAAG
TCTATGGAATACGATTTTATAATCGATTGGCTTGGTACAGGTCTTTTGATATCAACTGGC
AGTAAATGGCACAAAAGACGAAAGATCATAACACCAGCTTTTCATTTTAAAATTCTTGAT
CAGTTTGTTGACATCATGAACAAAAATGGAGATGTTTTTGTCGAAAAACTGAAGCATTTT
GAAGGTCGTGAGATTAACATATATCCATTGATATCACTTTATGCGCTTGATGTAGTTTGT
GAATCTGCCATGGGATATCAACTTAATGCCCAAACTGATGAAGACTCTGAATATGTCAAA
GCGGTCAAAGAAATAACTGAACTCTTGTTTTTGCGTTTCTTTGATACAACAAAGCGAATC
AAATTTTTATACCAATTTACATCGATGTATAGACGTGAGCAACAAATCATTAAGACTCTT
CATAAATTTACAGAGTCAGTCATTAGCTCACGTCGGGAACATTTAAAAGGTCATGATGTT
AATGCTAATAGTACCACAGCAAATGATCTTCAAAACATTGATGAAATTGGAATGAAAAAG
AAAACAGCATTTTTAGACCTTTTGTTACAAGTTCAAGTTAATGGACAATCATTAAGTGAT
GAAGGAATTCGTGAGGAAGTTGACACTTTTATGTTTGAAGCTCATGATACGACTAGTTCT
GCGATCGCTTTTACTCTCCTTAATTTGGCAAAATATAAAGACATTCAAAAGCGAGTTCTT
GAAGAATGTGAAGAAATACTTGGTGATGATTTGAGTCAACAACCGACAATGCAAGATTTG
AATAAAATGAATTATTTAGAGAAAGTTCTAAAGGAAACTTTAAGATTGTACCCATCAGTT
CCATTTTTTGCTAGAAAATTGAACACTGAATTTTCAACTGAAGGCTACACATTTCCAAAA
GGTGTATCACTCACTGTAGCACCTTATTTTATGGGTCGTGATCCAAAACTTTTCCCTGAT
CCTCTGAAATTTGATCCATCAAGATTTGATGATGAGAAAAATATAAGATTGTTTTCGTTT
GTGCCTTTCTCAGCTGGTCCAAGGAATTGCATCGGTCAAAAATATGCAATGCTTGAAATG
AAAAGCATTATTTCAAAACTTGTGAGAAATTTCGAAATTACAGTCAACAAAGAAAATGAA
GAGCCACAAATATGCGCGCAACTTATTTTGCAATCAACAAATGGAATAAATTTGTCATTG
AAACCCAGAAAGTAA
>g572.t1 Gene=g572 Length=504
MSAVALFLIFITGVYFWYQEKYKRYNELMDKIPCAKPHPILNHLLYFINKRPGEIFIILE
KMAKDHGPVWKFQIPLSEQIVVHDPKIVEEILLSQKIIDKSMEYDFIIDWLGTGLLISTG
SKWHKRRKIITPAFHFKILDQFVDIMNKNGDVFVEKLKHFEGREINIYPLISLYALDVVC
ESAMGYQLNAQTDEDSEYVKAVKEITELLFLRFFDTTKRIKFLYQFTSMYRREQQIIKTL
HKFTESVISSRREHLKGHDVNANSTTANDLQNIDEIGMKKKTAFLDLLLQVQVNGQSLSD
EGIREEVDTFMFEAHDTTSSAIAFTLLNLAKYKDIQKRVLEECEEILGDDLSQQPTMQDL
NKMNYLEKVLKETLRLYPSVPFFARKLNTEFSTEGYTFPKGVSLTVAPYFMGRDPKLFPD
PLKFDPSRFDDEKNIRLFSFVPFSAGPRNCIGQKYAMLEMKSIISKLVRNFEITVNKENE
EPQICAQLILQSTNGINLSLKPRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g572.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 14 | 504 | 9.1E-123 |
| 2 | g572.t1 | PANTHER | PTHR24291:SF143 | CYTOCHROME P450 4D1-RELATED | 6 | 503 | 4.3E-159 |
| 3 | g572.t1 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 6 | 503 | 4.3E-159 |
| 4 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 63 | 82 | 2.8E-23 |
| 13 | g572.t1 | PRINTS | PR00385 | P450 superfamily signature | 313 | 330 | 4.7E-12 |
| 9 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 322 | 348 | 2.8E-23 |
| 8 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 367 | 385 | 2.8E-23 |
| 12 | g572.t1 | PRINTS | PR00385 | P450 superfamily signature | 368 | 379 | 4.7E-12 |
| 6 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 407 | 431 | 2.8E-23 |
| 5 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 440 | 450 | 2.8E-23 |
| 10 | g572.t1 | PRINTS | PR00385 | P450 superfamily signature | 441 | 450 | 4.7E-12 |
| 7 | g572.t1 | PRINTS | PR00463 | E-class P450 group I signature | 450 | 473 | 2.8E-23 |
| 11 | g572.t1 | PRINTS | PR00385 | P450 superfamily signature | 450 | 461 | 4.7E-12 |
| 1 | g572.t1 | Pfam | PF00067 | Cytochrome P450 | 33 | 495 | 3.6E-112 |
| 17 | g572.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 16 | - |
| 18 | g572.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 19 | g572.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 11 | - |
| 20 | g572.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 16 | - |
| 16 | g572.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 17 | 504 | - |
| 22 | g572.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 443 | 452 | - |
| 14 | g572.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 32 | 503 | 1.57E-116 |
| 21 | g572.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 2 | 19 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g572/g572.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g572.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 transcript has been annotated with K15001 (cytochrome P450 family 4 [EC:1.14.-.-])
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.
