General information for g2248.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable cytochrome P450 6a13.
Parent gene
- The parent gene g2248 is located on chr_3: 16275637..16276285 (+ 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 | g2248 | g2248.t3 | TSS | g2248.t3 | 16273655 | 16273655 |
| chr_3 | g2248 | g2248.t3 | isoform | g2248.t3 | 16274639 | 16275975 |
| chr_3 | g2248 | g2248.t3 | exon | g2248.t3.exon1 | 16274639 | 16275218 |
| chr_3 | g2248 | g2248.t3 | cds | g2248.t3.CDS1 | 16274639 | 16275218 |
| chr_3 | g2248 | g2248.t3 | exon | g2248.t3.exon2 | 16275280 | 16275579 |
| chr_3 | g2248 | g2248.t3 | cds | g2248.t3.CDS2 | 16275280 | 16275579 |
| chr_3 | g2248 | g2248.t3 | exon | g2248.t3.exon3 | 16275637 | 16275975 |
| chr_3 | g2248 | g2248.t3 | cds | g2248.t3.CDS3 | 16275637 | 16275974 |
| chr_3 | g2248 | g2248.t3 | TTS | g2248.t3 | 16276368 | 16276368 |
Sequences
>g2248.t3 Gene=g2248 Length=1219
ATGATTTCAACTTTATATTTTGTTATCACTATAATTATTTTGTGTTATCTGTGGATAAAA
AAACGTTACAGATATTGGAAAGATCAAGGATTTTTACAAGAAGATGCAACATTTCCTATG
GGATCTTTTAAGAATGTTGGCACTAAAGAAACTGAATTTGAGGCTTTTGATAGTTGTTAC
AAGAAATTTAAAGGAAAGGTACAAGCAGTTGGAATTTATTCATTTTTATCACCTGCAATT
TTACTCATCGATTTGGAATTGATTAAAAATATTTATGTCAAAGAATTTTCATCATTTCAA
AGTCGTGGAATGTATTATAATGAAGAAGTTGATCCATTATCAGCAAATCTTCTGACATTA
GATGGTCAAAAATGGAAAGAACGTCGTGTAAAACTAACCCAAATGTTCACTTCTGGCAAA
ATGAAAATGATGTTTGAAATAATAGATTCTATTGGTGACAAATTAGTGACTGTCCTTGAA
AATAAATTGACTGAGTCATGTAATCAAGATATGAGAAATTGGGCACAAAGATTTACAGCT
GATAATATTGGCAACACTAGTTTTGGCTTGGAATGCAAATGTTTAGAAGATGAAAATTCA
AAATTTATGAAATACGGAAGAAAGATGTTTGATTTATCAATTTTTGAAGTTATGAGATTT
ATGTTTTCAATGTCCTTTCCAAACATTTCGAAGAAACTTGGTTTACGATTCTTCAGTAAA
GAAGTTGCTGATTTCTTTTATGAAACTTTTATTCAAACTTTTGAATATCGTGAAAAGAAC
AATGTGCAGAGAAATGATTTTGTATCAATGTTACTTGAGTTGAAAGATCAATTTACAAAA
GTTCAACTTGCTGCTGAAAGCACATTAGTATTTGGTGGTGGCTATGAAACAAGTTCAACA
TTGATGACTTTCATACTTTATGAGCTTGCACTTAATCCAGACATTCAACAAAAATTAAGA
GATGAAATTGAATCAAGAATTGAAGAAAATGATGGAAAATTAACTTATGAAATGTTGAAT
GAGCTTAAATTTCTTGACATGGTGACTAATGAAACTTTAAGAAAATATCCACCAATTGCA
AGTGGCATTAGACTTTGCAACAAAGACTACGAAATTCCTGGTACAAATTTAACTATTTCT
TCAGGAATTCCTGTTCAAATAAACACTTATTCACTTCATCATGATCCTGATTATTTTCCA
AATCCAAACACATTTGATC
>g2248.t3 Gene=g2248 Length=406
MISTLYFVITIIILCYLWIKKRYRYWKDQGFLQEDATFPMGSFKNVGTKETEFEAFDSCY
KKFKGKVQAVGIYSFLSPAILLIDLELIKNIYVKEFSSFQSRGMYYNEEVDPLSANLLTL
DGQKWKERRVKLTQMFTSGKMKMMFEIIDSIGDKLVTVLENKLTESCNQDMRNWAQRFTA
DNIGNTSFGLECKCLEDENSKFMKYGRKMFDLSIFEVMRFMFSMSFPNISKKLGLRFFSK
EVADFFYETFIQTFEYREKNNVQRNDFVSMLLELKDQFTKVQLAAESTLVFGGGYETSST
LMTFILYELALNPDIQQKLRDEIESRIEENDGKLTYEMLNELKFLDMVTNETLRKYPPIA
SGIRLCNKDYEIPGTNLTISSGIPVQINTYSLHHDPDYFPNPNTFD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2248.t3 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 14 | 406 | 4.3E-98 |
| 2 | g2248.t3 | PANTHER | PTHR24292 | CYTOCHROME P450 | 5 | 406 | 1.7E-131 |
| 3 | g2248.t3 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 5 | 406 | 1.7E-131 |
| 6 | g2248.t3 | PRINTS | PR00464 | Group II E-class P450 signature | 122 | 142 | 9.8E-12 |
| 5 | g2248.t3 | PRINTS | PR00464 | Group II E-class P450 signature | 177 | 195 | 9.8E-12 |
| 4 | g2248.t3 | PRINTS | PR00464 | Group II E-class P450 signature | 382 | 397 | 9.8E-12 |
| 1 | g2248.t3 | Pfam | PF00067 | Cytochrome P450 | 40 | 406 | 1.1E-70 |
| 12 | g2248.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 15 | g2248.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 23 | - |
| 11 | g2248.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 24 | 69 | - |
| 14 | g2248.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 70 | 88 | - |
| 13 | g2248.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 89 | 406 | - |
| 9 | g2248.t3 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 52 | 406 | 9.17E-81 |
| 7 | g2248.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 4 | 19 | - |
| 8 | g2248.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 88 | - |
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 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.
