General information for g1688.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cytochrome P450 CYP12A2.
Parent gene
- The parent gene g1688 is located on chr_3: 12558361..12560254 (+ 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 | g1688 | g1688.t4 | TSS | g1688.t4 | 12558295 | 12558295 |
| chr_3 | g1688 | g1688.t4 | isoform | g1688.t4 | 12558361 | 12560254 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon1 | 12558361 | 12558633 |
| chr_3 | g1688 | g1688.t4 | cds | g1688.t4.CDS1 | 12558361 | 12558633 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon2 | 12558688 | 12558793 |
| chr_3 | g1688 | g1688.t4 | cds | g1688.t4.CDS2 | 12558688 | 12558793 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon3 | 12558884 | 12559007 |
| chr_3 | g1688 | g1688.t4 | cds | g1688.t4.CDS3 | 12558884 | 12559007 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon4 | 12559056 | 12559335 |
| chr_3 | g1688 | g1688.t4 | cds | g1688.t4.CDS4 | 12559056 | 12559335 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon5 | 12559391 | 12559547 |
| chr_3 | g1688 | g1688.t4 | cds | g1688.t4.CDS5 | 12559391 | 12559414 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon6 | 12559606 | 12560021 |
| chr_3 | g1688 | g1688.t4 | exon | g1688.t4.exon7 | 12560092 | 12560254 |
| chr_3 | g1688 | g1688.t4 | TTS | g1688.t4 | 12560365 | 12560365 |
Sequences
>g1688.t4 Gene=g1688 Length=1519
ATGTTCATACGACAATCATTATCAACTACTCGTCGATTATTTTCGACAAATTTTGCAAAT
GAACTTCAAGAAGCAAAACCATTTTCTCAAATTCCTAAAATATCAGCTTTAAAATTAGTT
ATGGGTAATTTACCTGGTGGGAAATATTACAAGAAGTCAATAAAAGATATTCAAGATATG
TTTTATAAAGAATATGGTTGCATTGTAAAAATGCCGGGACTTTTTGGTCAACCTGAAATG
ATTTTTACCTTCAATGCAGACGATTTTGAAAAAGCATTCAGAGCAGAAGGAATTTGGCCA
GTGAGATTTGGAATTGAAACTTTAAAACATTATAGAGAAACAATGCGTCCAGAAATTTAT
ACAGAATTTGGAAGTTTAGGAACAAGTGATGGACAGAAATGGCAAACAACTAGAACAATT
GTCAATCCAATCATGATGCAACCTAAAACTGTCAAATTTTATACTCAACAAATTGATGAA
ATTGCTAAAGAACTTGTTGAAATAATGAGAAATATAAAAAATGATAAAAATGAAATGCCA
GGTAATTTCAGTGACTACCTCAATAGATGGTCGCTTGAATCAATTGCAACGATTGCAGTA
GAAAAACGATTAAATGTTCTTAGCGGTAAAACTGACGATGAAAATAGTAAAAAATTGATC
AAAGTCATTAGACAATTTTTCGAGCAAGGACCAGAATTTGAAGGAAAGCCAAGTATTTGG
AAGTATTATGAAACCAAAGATTTTAAGAATCTTATAGAAGTTTATGACACTATGACGAGG
TATTATTGTTTTCAATTATGTGAATGAAGCCATCAAAAGATTTGAAACAGAAGAAGTCAA
AGAAGGTCAGGAAGAAAGCATTTTGAGGAAGCTTTTAAAAGTTAATAAAAATGTGGCATT
TATCACTGCTAGTGATTTATTAATTGCTGGTGTTGATACTACCGCTTCCGGTGTCACATT
CATACTTTATTTATTAGCAAAAAATCCAGAAAAACAAGAAAAACTACGATCTGAAATTTT
AAAAATTTTGCCTGAGAAAAATTCACAAATCGATTCAGAGAAAATGAAAAATTTACCATA
TTTAAGAGCTGTGATCAAAGAAAGTTTTCGAATGTTGCCTGTTGCAGGAGGAAATGCAAG
AAAAGTTGCTAAAGATGTTGTGCTTGCTGGCTATCATGTACCAAAAGATAGTCTAATAGT
TATGAGTGCTTATAATGAACTATCAAATCCAAAATTCTATCCTGAACCTAAAAAATTCAT
TCCTGAAAGATGGTTAAGAGAGAGCAAAGAAAGTGATCAATGGAAATCAAAGGAAAATAA
TCCATTCTCATTCTTGCCCTTCGGATTTGGTGCTCGATCATGTGTTGGAAAGCGAATAGC
AGAATTAGAAACGGAAGTTGTTGTATCGAATATTATAAGAAATTTTAAACTAGAATGGGA
CTATCCTGATATAAAAATTAAAGGATTATTTGCAAATATTCCTGATTCAGAAATGAGATT
TAAAATTACAGAAACGTAA
>g1688.t4 Gene=g1688 Length=268
MFIRQSLSTTRRLFSTNFANELQEAKPFSQIPKISALKLVMGNLPGGKYYKKSIKDIQDM
FYKEYGCIVKMPGLFGQPEMIFTFNADDFEKAFRAEGIWPVRFGIETLKHYRETMRPEIY
TEFGSLGTSDGQKWQTTRTIVNPIMMQPKTVKFYTQQIDEIAKELVEIMRNIKNDKNEMP
GNFSDYLNRWSLESIATIAVEKRLNVLSGKTDDENSKKLIKVIRQFFEQGPEFEGKPSIW
KYYETKDFKNLIEVYDTMTRYYCFQLCE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1688.t4 | Coils | Coil | Coil | 151 | 178 | - |
| 5 | g1688.t4 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 22 | 265 | 3.7E-39 |
| 2 | g1688.t4 | PANTHER | PTHR24291:SF155 | CYTOCHROME P450 301B1 | 26 | 260 | 8.2E-34 |
| 3 | g1688.t4 | PANTHER | PTHR24291 | CYTOCHROME P450 FAMILY 4 | 26 | 260 | 8.2E-34 |
| 1 | g1688.t4 | Pfam | PF00067 | Cytochrome P450 | 38 | 258 | 1.3E-12 |
| 4 | g1688.t4 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 39 | 259 | 1.83E-14 |
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