General information for g17041.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytochrome P450 4C1.
Parent gene
- The parent gene g17041 is located on chr_4: 12299458..12301183 (- 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_4 | g17041 | g17041.t1 | isoform | g17041.t1 | 12299458 | 12301183 |
| chr_4 | g17041 | g17041.t1 | exon | g17041.t1.exon1 | 12299458 | 12300301 |
| chr_4 | g17041 | g17041.t1 | cds | g17041.t1.CDS1 | 12299458 | 12300301 |
| chr_4 | g17041 | g17041.t1 | exon | g17041.t1.exon2 | 12300567 | 12301183 |
| chr_4 | g17041 | g17041.t1 | cds | g17041.t1.CDS2 | 12300567 | 12301183 |
| chr_4 | g17041 | g17041.t1 | TSS | g17041.t1 | 12302144 | 12302144 |
| chr_4 | g17041 | g17041.t1 | TTS | g17041.t1 | NA | NA |
Sequences
>g17041.t1 Gene=g17041 Length=1461
ATGATGACAATTTTCAAAGTGCTTTTTATAATTTTAATAATTTTTTTCATTCAAATATTT
TACAAATGGCTTAAATATTTTTACATTATAAAAAAGATTCCAAAAAGTTCATTGAAAATT
TCTTTTAAAACTTTATGGGAATTAGCAGGTGGTGACACTAAAAAGCTTTTTGATAAATTT
GTGAAAAATTTAGATTCTGATGGACTTAAAAGAGTTCATTTTGGGCCATTTTTATTTATC
AATGTTGCATCACCAGAAGATTTACAATTAATTTTAAATTCAAAATGTTGCTTGCCAAAA
GATCATCCTACAAATAATTTTCTAAAAGTTCCACAAGGTTTACTTTCATGTTCAATTGAC
AAATGGTATTTGCATAGAAAAATTATGAATCCTTATTTTGGTTTGCAATATCTTCACACA
ATTATTCCAATAATGAATAGAAAAGTGAAAAGTCTTATGGAAAATTTAAATAAAATGGAA
GGCAAAGGAGAATTTAATATTTTCAATGATTTGAGTTTACTTGCAATTGACAATATTTTG
ACAGCCATGGATTTAGATTTGGATGTTCAGAAAAACAAAGAAAAATATTCTGAAATTTTT
CTTAAAAATTTTAAAATCTGCAATGAAGTCGTAATCGAAAGACATGTAAAATTTTGGCTT
CATCCTGAATTTATTTTTAATCAAACAAATTTAAATGAAAAAATAACAAATGCAGTATCA
GAAATTTCAAAAGAAACAACATTAAAAATAATGCAACAAATTCGAGAAAATCAAAAAAAT
TCAAACACATTCGTGCAAGCTTTGATGGACCCAAAAAATAATTTAACAGATGAAGAAATT
CATGATGAAATTTGTACAATTATTTTAACAGCTACAGATACTTCTGCAGTTACAGCTTCA
TCTGTTATACTTCTTCTTGCAATGCATAAGGAAATTCAAAATAAAGTTTTTAATGAACTC
AAGCAAGTTCTTGGAAATTCAACTGAAAAATTGACCTTAGATATGGAAATGTTGAATAAA
TTAAATTACCTTGAAATGGTCATAAAAGAAACATTAAGATTAATGCCAATTGGAGTGTCA
CCAGTTAAGGTCAATAAAGAGGAAATAATTTCAAGTGAAGGTTATGTCATTCCAGCTGAA
TCAACTCTGCTTCTTTCAGTTTATGCAATTCATCGCAGTAAAACAATTTGGGGTGAAAAT
GCAAATGAATTTGAACCAGAAAGATTTTCAAATGAAAGATTTAAAAAAATTCATCCTTAT
GCTTTTATTCCATTTTTAAAAGGTCCAAGAATGTGCATTGGATGGCGTTATTCGATGATT
TTGATAAAAACTTTACTTGCAAATATTTTACTGAAATATGAAATTGATACAAATTTAAAA
TTTCATGAGCTGGAATTTGAAACTTGTCCTATATTGAAAGTTTGTCAAGGATATTTGGTT
AGTATAAAAGAGAGAAAATAA
>g17041.t1 Gene=g17041 Length=486
MMTIFKVLFIILIIFFIQIFYKWLKYFYIIKKIPKSSLKISFKTLWELAGGDTKKLFDKF
VKNLDSDGLKRVHFGPFLFINVASPEDLQLILNSKCCLPKDHPTNNFLKVPQGLLSCSID
KWYLHRKIMNPYFGLQYLHTIIPIMNRKVKSLMENLNKMEGKGEFNIFNDLSLLAIDNIL
TAMDLDLDVQKNKEKYSEIFLKNFKICNEVVIERHVKFWLHPEFIFNQTNLNEKITNAVS
EISKETTLKIMQQIRENQKNSNTFVQALMDPKNNLTDEEIHDEICTIILTATDTSAVTAS
SVILLLAMHKEIQNKVFNELKQVLGNSTEKLTLDMEMLNKLNYLEMVIKETLRLMPIGVS
PVKVNKEEIISSEGYVIPAESTLLLSVYAIHRSKTIWGENANEFEPERFSNERFKKIHPY
AFIPFLKGPRMCIGWRYSMILIKTLLANILLKYEIDTNLKFHELEFETCPILKVCQGYLV
SIKERK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17041.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 30 | 486 | 3.8E-86 |
| 2 | g17041.t1 | PANTHER | PTHR24291:SF140 | CYTOCHROME P450 4C3-RELATED | 7 | 485 | 2.2E-78 |
| 3 | g17041.t1 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 7 | 485 | 2.2E-78 |
| 4 | g17041.t1 | PRINTS | PR00385 | P450 superfamily signature | 290 | 307 | 1.1E-6 |
| 10 | g17041.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 341 | 357 | 1.7E-5 |
| 5 | g17041.t1 | PRINTS | PR00385 | P450 superfamily signature | 346 | 357 | 1.1E-6 |
| 8 | g17041.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 416 | 432 | 1.7E-5 |
| 7 | g17041.t1 | PRINTS | PR00385 | P450 superfamily signature | 423 | 432 | 1.1E-6 |
| 6 | g17041.t1 | PRINTS | PR00385 | P450 superfamily signature | 432 | 443 | 1.1E-6 |
| 9 | g17041.t1 | PRINTS | PR00465 | E-class P450 group IV signature | 432 | 450 | 1.7E-5 |
| 1 | g17041.t1 | Pfam | PF00067 | Cytochrome P450 | 67 | 457 | 9.8E-68 |
| 14 | g17041.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 16 | g17041.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 24 | - |
| 15 | g17041.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 486 | - |
| 12 | g17041.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 49 | 485 | 5.11E-81 |
| 11 | g17041.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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:0004497 | monooxygenase activity | MF |
| GO:0055114 | NA | NA |
KEGG
Orthology
- This transcript has been annotated with K15401 (long-chain fatty acid omega-monooxygenase)
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.
