General information for g48.t1
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 g48 is located on chr_3: 411950..414671 (+ 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 | g48 | g48.t1 | TSS | g48.t1 | 410853 | 410853 |
| chr_3 | g48 | g48.t1 | isoform | g48.t1 | 410889 | 414671 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon1 | 410889 | 411235 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS1 | 410889 | 411235 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon2 | 411293 | 411525 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS2 | 411293 | 411525 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon3 | 411582 | 411882 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS3 | 411582 | 411882 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon4 | 411941 | 412338 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS4 | 411941 | 412338 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon5 | 412395 | 412417 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS5 | 412395 | 412417 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon6 | 412477 | 412637 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS6 | 412477 | 412637 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon7 | 413019 | 413327 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS7 | 413019 | 413327 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon8 | 413383 | 413915 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS8 | 413383 | 413915 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon9 | 413967 | 414389 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS9 | 413967 | 414389 |
| chr_3 | g48 | g48.t1 | exon | g48.t1.exon10 | 414508 | 414671 |
| chr_3 | g48 | g48.t1 | cds | g48.t1.CDS10 | 414508 | 414671 |
| chr_3 | g48 | g48.t1 | TTS | g48.t1 | 414831 | 414831 |
Sequences
>g48.t1 Gene=g48 Length=2892
ATGGGTTTTGTTTTGACATTAATAATTATTTTAGTAATTTCATTTTATTTTTGGATGAAA
AAACATTTTAATTATTGGAAAAATCGAGGTTTTCTGCAAGTTGATGGATCATTTCCATTA
GGCTCACTTAGTGGTGTTGGAACAAAAATATGTTCGACTGAAAAATATGACTTGATTTAT
AAAGGTTTCAAGGGAAAAGCGTCGGTTGTTGGATTTTATAATTTTTTATCACCAGCAGTT
TTGCCAATTGAACCTGAATTGATTAAAAATATTTTGGTATTAAATTTTGCATCATTTCAT
GATCGTGGTCTTTATTATAATAAGAAAGATGATCCAATGAGTGCTAATTTAGTAGCTTTA
GAAGGTCAAGAATGGAAAGAACGTCGTACAAAAATCACCCCATTATTTTCATCAGGAAAG
ATTAAAATGATGTTTGAAATAGTCACTGAAATTGGTGATAAATTAGTAAATGCTATAAAA
AGAGAATTGAATGAGTCAACTGAACAAGATATGAGAGTTTGGGCACAAAAATATACAAAT
GATACAATTAGCAATATCGCATTTGGACTCTCTCTTTCTTGTCTTGATGGTGAAAATTTG
GAATTTTTAAAAAATGGAAAGAGACTTTTTGAGCTTAAACCATGGGAAGTTTTGAAAATT
CTTTTTACATCTGAAATGCCAAAACTTAGTAGATTTCTTCGTTTGAAATTCACTGCTGGA
AATACTGGAGAATTTTTTCATAAAACTTTTCTTGAAACTTTTAATTATCGTCAAAATAAT
TCAATTGAACGCAATGATTTAGTGTCGTTGTTGTTAAAACTGAAAGATGTTTATACTCTG
ACAGAACTTGCAGCTGAAGCATTTTTAGTATACACTGGCGGATTTGAGACAAGTTCAACT
TTAATAACTTTTGCTCTCTATGAATTTTCATTAAATCAACAAATTCAAGAAAGATTGCGT
GATGAAATAAATTCGGGAATTGAAAATAATGATGGAAAATTGACTTATGAATTATTAAAC
AGTTTTAAATATTTAGAAATGGTTATTAATGAAACTCTAAGGAAATATCCACCGCTTTCT
AACATTTTTCGTAAAACTACCAAAGATTATAAAATTCCTGATGAAGATTTATTGATTTGT
AAAGGAACAGCAGTTATAATTAATACTTATTCATTACATCATGATCCTCAATACTTTTCA
AAACCTGACAAATTTGATCCGGAAAGGTTTAATGAAGAAAACATTGGAAGTATTAAACCT
TATACATTTTTGCCATTTGGTGCTGGAGCTAGAAATTGCATTGGAATGCGATTTGGAATG
ATGCAAACAAAAATAGCAATCACGAAATTGATTTCAAATTTTTCTTTTAAGCCATGTTCA
AAAACAACAATTCCAATGAAATTTAAACCTTCTTCACCATTCATTTGTCCTGTTGATGGA
ATGTTTTTGAGTGTGGAATCATTTTTACTTTATTCTTGGTTAAGTAATATTTTTAATGTG
TGGAAAAATCGTGGATTTTTGCAAGTTAAAGGGTCATTGCCCTTTGGTTCATTGAAAGGA
GTCGGTTCAATTATGACAAGATTTGAAGGTCTTGAGAGTTGCTACAAAGCTTATAAAGGA
AAAGCTCCTGCTGTTGGATATTATTCATTATTTAAAGCAAATTTATTGGCATTAGATCCA
AATTTAATCAAAAATGTTCTTGTGACTGATTTTGCATCATTTCATGAACGTACACTTTAT
TATAATAAAAAAGATGATCCACTAAGTGCTAATACTCTCACATTTGATGGTCAAGAATGG
AAAGATCGAAGACAAAAATTGACACCAATTTTTACATCAGGAAAAATGAAAATGATGTTT
GAAATAACTGATAAAATTGGTGATCAATTAGTTAGCACACTTGCAAGTAAATTAACAGAA
TCGTCAGATCAAGATATAAGAAATTGGTGCCAAAGATTTACAGCTGACAATATCATGAAT
ATTGCATTTGGAATCAATGGAAATTGCATTGAAGATCCAAATTCAGAATTTATGAAATAT
GGACGAAAAGCTGTTGATTTATCAGCTTTGCAACTTTTCAATTTTGTTTTTACAAACAAT
TTTCCTAATGTTTCACGAAAATTAGGCTTGAAATTTTTCCCTAAAGAAGTTGGTGACTTT
TTTTTAAATGTTTTTCAACAAACACTTGAATATCGTGAAAAAAATGAAATAAATAGAAAC
GATCTTGTGTCTATGTTACTTAAGTTAAAAGGACAACTTGAGACTAATGAAATGGCTGCA
GAAAGTATGGTTACTTTTGCTGCAGGTTATGAAACAAGTTCAACATTGATGCAATTCACT
CTTTATGAGCTTGCATTGAATCCAGAAATTCAACAAAGATTAAGAGATGAAATTAATTCA
GGTATTAAAGAAAATGGAGGAAAATTGACTTATGAACTTCTCAATAGTTTTAAATATCTT
GACATGGTCATTAAAGAATCATTAAGAAAATATCCATCAATTCCAATATACTCGAGAGAA
TGCAATAAAGAGTTTCAAATTCCTGACACAAATCTTGTCATTCCAAAAGGAACAACTGTC
TATATTTCTGCTTATTCATTGCATCGTGATCCTGAATATTGGATAAATCCAGATAAATTT
GACCCAGAGAGATTTAATGAAGAAAATGAGAGAAATATTACGCCATTTACTTTTCTTCCA
TTTGGTGAAGGACCAAGACAATGTTTAGGCATGAGATTCGGTTCAATGCAATCAAAAGCG
GGAGTAGCAAAACTTATTTCAAGTTTTTTATTTTCACCATGCATTAAAACAACGATTCCA
ATGAAATTTGTGCCTACTGCTCCATTTTTATTTCCTAAAGGAGGAATGTGGTTAAAAGTT
GAGAAAATTTAA
>g48.t1 Gene=g48 Length=963
MGFVLTLIIILVISFYFWMKKHFNYWKNRGFLQVDGSFPLGSLSGVGTKICSTEKYDLIY
KGFKGKASVVGFYNFLSPAVLPIEPELIKNILVLNFASFHDRGLYYNKKDDPMSANLVAL
EGQEWKERRTKITPLFSSGKIKMMFEIVTEIGDKLVNAIKRELNESTEQDMRVWAQKYTN
DTISNIAFGLSLSCLDGENLEFLKNGKRLFELKPWEVLKILFTSEMPKLSRFLRLKFTAG
NTGEFFHKTFLETFNYRQNNSIERNDLVSLLLKLKDVYTLTELAAEAFLVYTGGFETSST
LITFALYEFSLNQQIQERLRDEINSGIENNDGKLTYELLNSFKYLEMVINETLRKYPPLS
NIFRKTTKDYKIPDEDLLICKGTAVIINTYSLHHDPQYFSKPDKFDPERFNEENIGSIKP
YTFLPFGAGARNCIGMRFGMMQTKIAITKLISNFSFKPCSKTTIPMKFKPSSPFICPVDG
MFLSVESFLLYSWLSNIFNVWKNRGFLQVKGSLPFGSLKGVGSIMTRFEGLESCYKAYKG
KAPAVGYYSLFKANLLALDPNLIKNVLVTDFASFHERTLYYNKKDDPLSANTLTFDGQEW
KDRRQKLTPIFTSGKMKMMFEITDKIGDQLVSTLASKLTESSDQDIRNWCQRFTADNIMN
IAFGINGNCIEDPNSEFMKYGRKAVDLSALQLFNFVFTNNFPNVSRKLGLKFFPKEVGDF
FLNVFQQTLEYREKNEINRNDLVSMLLKLKGQLETNEMAAESMVTFAAGYETSSTLMQFT
LYELALNPEIQQRLRDEINSGIKENGGKLTYELLNSFKYLDMVIKESLRKYPSIPIYSRE
CNKEFQIPDTNLVIPKGTTVYISAYSLHRDPEYWINPDKFDPERFNEENERNITPFTFLP
FGEGPRQCLGMRFGSMQSKAGVAKLISSFLFSPCIKTTIPMKFVPTAPFLFPKGGMWLKV
EKI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g48.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 14 | 488 | 1.2E-123 |
| 19 | g48.t1 | Gene3D | G3DSA:1.10.630.10 | Cytochrome p450 | 489 | 963 | 6.9E-128 |
| 4 | g48.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 4 | 486 | 0.0 |
| 6 | g48.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 4 | 486 | 0.0 |
| 3 | g48.t1 | PANTHER | PTHR24292 | CYTOCHROME P450 | 489 | 963 | 0.0 |
| 5 | g48.t1 | PANTHER | PTHR24292:SF95 | CYP6A16, ISOFORM B-RELATED | 489 | 963 | 0.0 |
| 10 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 757 | 774 | 3.5E-19 |
| 16 | g48.t1 | PRINTS | PR00385 | P450 superfamily signature | 768 | 785 | 4.2E-10 |
| 7 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 777 | 803 | 3.5E-19 |
| 8 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 821 | 839 | 3.5E-19 |
| 15 | g48.t1 | PRINTS | PR00385 | P450 superfamily signature | 822 | 833 | 4.2E-10 |
| 9 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 863 | 887 | 3.5E-19 |
| 12 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 898 | 908 | 3.5E-19 |
| 14 | g48.t1 | PRINTS | PR00385 | P450 superfamily signature | 899 | 908 | 4.2E-10 |
| 11 | g48.t1 | PRINTS | PR00463 | E-class P450 group I signature | 908 | 931 | 3.5E-19 |
| 13 | g48.t1 | PRINTS | PR00385 | P450 superfamily signature | 908 | 919 | 4.2E-10 |
| 2 | g48.t1 | Pfam | PF00067 | Cytochrome P450 | 68 | 475 | 1.3E-93 |
| 1 | g48.t1 | Pfam | PF00067 | Cytochrome P450 | 515 | 954 | 3.5E-94 |
| 22 | g48.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 23 | g48.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 24 | g48.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 25 | g48.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 21 | g48.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 963 | - |
| 27 | g48.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 426 | 435 | - |
| 28 | g48.t1 | ProSitePatterns | PS00086 | Cytochrome P450 cysteine heme-iron ligand signature. | 901 | 910 | - |
| 17 | g48.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 65 | 485 | 1.96E-106 |
| 18 | g48.t1 | SUPERFAMILY | SSF48264 | Cytochrome P450 | 529 | 961 | 1.19E-109 |
| 26 | g48.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.
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.
