General information for g12859.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Luciferin 4-monooxygenase.
Parent gene
- The parent gene g12859 is located on chr_1: 26581702..26583692 (- 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_1 | g12859 | g12859.t1 | TTS | g12859.t1 | 26581652 | 26581652 |
| chr_1 | g12859 | g12859.t1 | isoform | g12859.t1 | 26581702 | 26583692 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon1 | 26581702 | 26582006 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS1 | 26581702 | 26582006 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon2 | 26582060 | 26582377 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS2 | 26582060 | 26582377 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon3 | 26582499 | 26582682 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS3 | 26582499 | 26582682 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon4 | 26582737 | 26583245 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS4 | 26582737 | 26583245 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon5 | 26583317 | 26583524 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS5 | 26583317 | 26583524 |
| chr_1 | g12859 | g12859.t1 | exon | g12859.t1.exon6 | 26583579 | 26583692 |
| chr_1 | g12859 | g12859.t1 | cds | g12859.t1.CDS6 | 26583579 | 26583692 |
| chr_1 | g12859 | g12859.t1 | TSS | g12859.t1 | 26583721 | 26583721 |
Sequences
>g12859.t1 Gene=g12859 Length=1638
ATGGTTTCTGATTCAAATATTTTATATGGTGGTGATTATGAGGAACCTTCGTGTATATCT
TTTGGTGAACTAATTTTTAGAACACTAAAAAGAAGAAGAGAAGAAGTTTTAATTATTGAT
GGACTAACTGGAATTAAATTCACTGGAAATCAAATTCTAAATTCAAGCATTGAAATTGCA
AATGCCCTTAGAAATTATGGAATTAAAAGAAATGATGTCATCGGAATTGTTTCAGAAAAT
CGAATTGAGTTTGTTAAAATTGCTTTTGCAACTTTTATTTTAAATGCTCAATTGTCGCCA
GTTAATTATAATTATGTGAAAAATGATCTTTCACATGCTTTCAATATTTCGAAGCCAACA
CTAATTTTTTCAACAACAAGTGCGATTAAGAATGTAATTTCAACATGCAAAGATCTTGAC
TATGTGAAACAAATAATTTCAATTGATGAAATTAATTCAACCGAACTCTTATCATTGTCT
GCTTTCATTCAAAAATTTTCATTTCCATTTTTCAACATTAATTCAATAATTTCCACTAAA
GTTGACTTAAAACTACAAACTGCAATAATTTTTCTATCAAGTGGTACAACTAGTGTTGCA
AAAGGATGTGAAATTACTCAATATAATATGGCCACATGCATCACTGCGTTTCAAAAGCGA
ATGAAATTTTTGAAGCAATTTTCTGCTGATGGAAAAATTATGACATTGAACATTACACCA
TGGTTCCACGTGATGGGAATGGTCAATATATTTTCCATTTTAATGTGTGATGATATATCA
ACTGTTAGTTTATCTAAATTTGAACCAAAAGTATTTTTTGGATGTATTGAAAAATATCGA
GTGATTTCAACAAGTATTCCACCACCAATTGTGGTCTTTCTTTCGAAAACTCCATTGCTG
AATGATTACGATTTATCTAGTTTAAAAGCAATTTTTTGTGGTGCAGCTGCATTAAAGAAA
GAAACTGAAGATTTAGTTAAAAGTCGATTCAAAAATAAATTGACAATTCTTCAAGGTTAC
GGAATGACAGAAACAACAGCAGGAATAATTTATGGAGTTTATGGGAAAGAAGTTCCTGGC
TCAACTGGAATGCTTGAAGAAGGAATTTATGCCAAAGTTATTGATGAAGAAGGAAAGTCT
TTGAAACCGAATCAAATAGGAGAAATTTGTGTAAAAGGAAATCGTATAATGAAAGGATAT
TTGAATGATCCAAAATCAACTGCTGAAACAATTGATAAAGATGGTTGGCTGCATACTGGA
GACTTGGGATATTACAATGAAGATCTTCAATTCTTTGTTGTTGATCGATTGAAAGAATTG
ATTAAATACAAAGGTTTTCAAGTTGCACCAGCTGAACTTGAGGGACTTTTACTTTCTCAT
CCTAAAATCAAAGATGTTGGAGTCATTGGAATTCCTGACGAAACTGCTGGTGAACTTCCG
TTTGCATTTGTCGTTAAACAAGATGGTATTGAGGTGACAGCAAAAGAAGTCAAAGAATTT
GTTAAAAAAAATGCAAGCAATGCAAAATGGTTAAGAGGTGGTGTGAAATTCATCCCTGAA
ATTCCCAAAAATCCAAGTGGAAAAATTTTACGAAGAGAACTGAAAAATTTGTATAAAAAC
TTCAAAGCAAAATTGTAA
>g12859.t1 Gene=g12859 Length=545
MVSDSNILYGGDYEEPSCISFGELIFRTLKRRREEVLIIDGLTGIKFTGNQILNSSIEIA
NALRNYGIKRNDVIGIVSENRIEFVKIAFATFILNAQLSPVNYNYVKNDLSHAFNISKPT
LIFSTTSAIKNVISTCKDLDYVKQIISIDEINSTELLSLSAFIQKFSFPFFNINSIISTK
VDLKLQTAIIFLSSGTTSVAKGCEITQYNMATCITAFQKRMKFLKQFSADGKIMTLNITP
WFHVMGMVNIFSILMCDDISTVSLSKFEPKVFFGCIEKYRVISTSIPPPIVVFLSKTPLL
NDYDLSSLKAIFCGAAALKKETEDLVKSRFKNKLTILQGYGMTETTAGIIYGVYGKEVPG
STGMLEEGIYAKVIDEEGKSLKPNQIGEICVKGNRIMKGYLNDPKSTAETIDKDGWLHTG
DLGYYNEDLQFFVVDRLKELIKYKGFQVAPAELEGLLLSHPKIKDVGVIGIPDETAGELP
FAFVVKQDGIEVTAKEVKEFVKKNASNAKWLRGGVKFIPEIPKNPSGKILRRELKNLYKN
FKAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g12859.t1 | CDD | cd05911 | Firefly_Luc_like | 38 | 530 | 2.30174E-178 |
| 11 | g12859.t1 | Coils | Coil | Coil | 531 | 545 | - |
| 8 | g12859.t1 | Gene3D | G3DSA:3.40.50.980 | - | 45 | 358 | 6.2E-106 |
| 7 | g12859.t1 | Gene3D | G3DSA:3.40.50.980 | - | 49 | 206 | 6.2E-106 |
| 10 | g12859.t1 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 359 | 436 | 6.2E-106 |
| 9 | g12859.t1 | Gene3D | G3DSA:3.30.300.30 | - | 437 | 543 | 1.1E-30 |
| 3 | g12859.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 20 | 541 | 8.1E-153 |
| 4 | g12859.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 20 | 541 | 8.1E-153 |
| 2 | g12859.t1 | Pfam | PF00501 | AMP-binding enzyme | 29 | 443 | 1.1E-74 |
| 1 | g12859.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 452 | 528 | 4.8E-15 |
| 6 | g12859.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 190 | 201 | - |
| 5 | g12859.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 18 | 541 | 2.35E-118 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K02182 (carnitine-CoA ligase)
Pathway
This gene does not belong to any 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. There were no conditions that were differentially expressed