General information for g4003.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Cytochrome P450 18a1.
Parent gene
- The parent gene g4003 is located on chr_3: 29463946..29466368 (+ 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 | g4003 | g4003.t2 | TSS | g4003.t2 | 29462923 | 29462923 |
| chr_3 | g4003 | g4003.t2 | isoform | g4003.t2 | 29463946 | 29464913 |
| chr_3 | g4003 | g4003.t2 | exon | g4003.t2.exon1 | 29463946 | 29464136 |
| chr_3 | g4003 | g4003.t2 | exon | g4003.t2.exon2 | 29464197 | 29464741 |
| chr_3 | g4003 | g4003.t2 | cds | g4003.t2.CDS1 | 29464327 | 29464741 |
| chr_3 | g4003 | g4003.t2 | exon | g4003.t2.exon3 | 29464819 | 29464913 |
| chr_3 | g4003 | g4003.t2 | cds | g4003.t2.CDS2 | 29464819 | 29464913 |
| chr_3 | g4003 | g4003.t2 | TTS | g4003.t2 | NA | NA |
Sequences
>g4003.t2 Gene=g4003 Length=831
GTGTGATAAATGCAGAAGGTGCACTTTGGAAGTCAGAAAGGCGCTTCTTGCATGAGAAAC
TTAGACGTTTTGGAATGACGCATTTAAATAGTAAAAACAACAAATTGCACGACATCATAA
ATGTAAGTTTTTTCCTTCTTTTTTTTCGGTGCCCTTGACAAAACTAAAAAATTCACACAA
CTATAGTCTTTATGTACACGTGCATGCATTTAGAATGAAATCAATGAGCTTCTAACGACG
TTAAGGCACGAAACGAAGAAGCCAATCGACTTGGAACCGCACTTTGCCGTCTCAATTAGC
AACGTCGTGTGCAATTTATTAATGTCTGTTCGTTTTACACGAAATGATCCAAAATTCATC
AGATTTAATAGCATGATTGAGGAGGGCATGAAATTATTTGGAAAAATCACTTCAGTCGAT
TACATTCCAATTACTCAGTATTTTCCATCATTCCAAACAGCAAAGAGTCAAATCGCTAGC
AATCGCGAAGAAATGTTTGAATTTTATCGCGAAGTGATTGAAGACCATCGAAAGACATTT
GATCGTAATAACATTCGCGATTTAGTGGACTTTTATCTATTAGAAATTGAACTTGCAAAG
GAAAATGGAACTGAACATGAGCTTTTTAATGGTCGAAATCATGATGAACAAATAATGCAA
GTGATGGGAGATTTATTCAGTGCTGGTATGGAAACCATCAAGACGACATTGCTTTGGTTG
ATCGTCTTTATGTTGCGACTTACAATATCTGCCAAATACCGAGAGTACAATTTACGAAGT
GCTTCGAATAAGCTCGATAGTGCCACTAGCCACAACACACTCACCGATGAT
>g4003.t2 Gene=g4003 Length=170
MSVRFTRNDPKFIRFNSMIEEGMKLFGKITSVDYIPITQYFPSFQTAKSQIASNREEMFE
FYREVIEDHRKTFDRNNIRDLVDFYLLEIELAKENGTEHELFNGRNHDEQIMQVMGDLFS
AGMETIKTTLLWLIVFMLRLTISAKYREYNLRSASNKLDSATSHNTLTDD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4003.t2 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 1 | 142 | 0 |
| 2 | g4003.t2 | PANTHER | PTHR24300 | CYTOCHROME P450 508A4-RELATED | 1 | 139 | 0 |
| 3 | g4003.t2 | PANTHER | PTHR24300:SF334 | CYTOCHROME P450 18A1 | 1 | 139 | 0 |
| 1 | g4003.t2 | Pfam | PF00067 | Cytochrome P450 | 2 | 139 | 0 |
| 4 | g4003.t2 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 2 | 139 | 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
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