General information for g4476.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 g4476 is located on chr_2: 2756398..2757191 (- 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_2 | g4476 | g4476.t1 | TTS | g4476.t1 | 2754992 | 2754992 |
| chr_2 | g4476 | g4476.t1 | isoform | g4476.t1 | 2755271 | 2757191 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon1 | 2755271 | 2755575 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS1 | 2755271 | 2755575 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon2 | 2755630 | 2756128 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS2 | 2755630 | 2756128 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon3 | 2756193 | 2756413 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS3 | 2756193 | 2756413 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon4 | 2756472 | 2756753 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS4 | 2756472 | 2756753 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon5 | 2756809 | 2757016 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS5 | 2756809 | 2757016 |
| chr_2 | g4476 | g4476.t1 | exon | g4476.t1.exon6 | 2757072 | 2757191 |
| chr_2 | g4476 | g4476.t1 | cds | g4476.t1.CDS6 | 2757072 | 2757191 |
| chr_2 | g4476 | g4476.t1 | TSS | g4476.t1 | 2757220 | 2757220 |
Sequences
>g4476.t1 Gene=g4476 Length=1635
ATGGATGATCCAAATATTATTTACGGTGGTGATTTTGAGAATAATTATTACTTAAATTTA
TCATCAATTGGTGAATTAATTTTAAAAAATTTAAAACTTGGTGGATCGAAACATGGTTTT
ATTAATGGTCAAACAGGAGAATCATGGAGTTATGATGAAATTCTTAAGTTTAGTATTAAA
ATTTCTCAAGCCTTGAATAATGTTGGAGTAAAACAAAACGATATAATATCAATTGTTGCT
GAAAACTGTCATCAATACATGACTGTTGCATGTGGAACATTTTTAATGAATGCAATTCTC
GCACCATTTAATTATACCTACACAAAGCGGGAACTCAAGCATGCTTTTGAATTGATAAAC
CCAAAGATTGTTTTCGTATCTTCAAGCACAGTAAAAAATGTAGGTTCTTTAAGTAAAGAA
TTTTCTTATATGAAACATATCATAACAATCGATAATTCAGAACATGAAAGTGCTATTCCA
CTCAAAAAATTCATTGAGAACTATTCAAATGCATCTTTTGACCTGCCTCAACGTTCAATA
AAAGCTATAGATAAGGAAAAGAAAACGGTGATAATTTTTCAAAGTAGTGGGACAACTGGT
TTACCAAAAGGAGTAGAAATTACACATATGAACATTCTTTCTTGTAAACAGGGTTATAAT
GATGATTTCAAGTATTTAAAACCCTATGGTGAAAATCTTTCAAATTTGGGCATTGCACCG
TGGTCGCATGTCATGGGCTTTATGGGTTCTTTTTTTGCTCTTTTGAGTCCCGAAAGAGTT
CATATTTTTCTACCTAAATTTGAGGGTGAAACCTATTTAAAATGTCTTGAGAAATATAAA
GTAAAAATTATTGCCGTTCCACCACCAATTATTGTGTTTCTTACTAAAACTCCACTATTT
GATAAATATGACTTGACAAATTTAAGAGTAATTTTTTCTGGAGCTGCACCATTAGCTAAA
GACGTTGAATTGGCTGCAATAAAAAGATTCAACAATAGAATCATCATTTGTCAAGGATAT
GGCATGTCTGAAACAACTTTGGGTGTAACTGGAACTTTTGTTCAACTAAAACATGGGTCA
GTTGGAAAAGTTGGTTATGGCATGTATGCAAAAGTAATTGACAGCAATGGAAAATCTTTA
GGTCCAAACAAAGTTGGTGAATTATGTTTCAAAGGTTCAAGAATTATGAAAGGATATTTT
AACAATGCTAAAGCAACTGCTGAAACAATTGATAAAGATGGTTGGTTGCATACAGGTGAT
TTGGGATATTTTGATAATGAACATCAATTTTTCATTGTTGACCGATTGAAAGAATTAATC
AAGTACAAAGCTTTTCAAGTTGCTCCAGCTGAAATTGAAGGACTTTTGCTATCACACCCG
AAAATTAAAGATGCAGGTGTGATTGGTATTCCAAATAATGTTGTAGGTGAACTACCTTTT
GCTTTTGTCGTTAAACTACCTGAAGTTGAACTTACCGAGAAAGAAGTGCAAGATTTCATA
AAAGAGAATGCAAGCAATGCCAAATGGTTACGAGGAGGCGTGAAATTTGTCGATGAAATC
CCTAAAAATCCAAGTGGTAAAATTTTGAGAAGAGAATTGAGAGAAGCCTATAAAATTTCA
AGAGCTAAATTGTAA
>g4476.t1 Gene=g4476 Length=544
MDDPNIIYGGDFENNYYLNLSSIGELILKNLKLGGSKHGFINGQTGESWSYDEILKFSIK
ISQALNNVGVKQNDIISIVAENCHQYMTVACGTFLMNAILAPFNYTYTKRELKHAFELIN
PKIVFVSSSTVKNVGSLSKEFSYMKHIITIDNSEHESAIPLKKFIENYSNASFDLPQRSI
KAIDKEKKTVIIFQSSGTTGLPKGVEITHMNILSCKQGYNDDFKYLKPYGENLSNLGIAP
WSHVMGFMGSFFALLSPERVHIFLPKFEGETYLKCLEKYKVKIIAVPPPIIVFLTKTPLF
DKYDLTNLRVIFSGAAPLAKDVELAAIKRFNNRIIICQGYGMSETTLGVTGTFVQLKHGS
VGKVGYGMYAKVIDSNGKSLGPNKVGELCFKGSRIMKGYFNNAKATAETIDKDGWLHTGD
LGYFDNEHQFFIVDRLKELIKYKAFQVAPAEIEGLLLSHPKIKDAGVIGIPNNVVGELPF
AFVVKLPEVELTEKEVQDFIKENASNAKWLRGGVKFVDEIPKNPSGKILRRELREAYKIS
RAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4476.t1 | CDD | cd05911 | Firefly_Luc_like | 40 | 529 | 0.0 |
| 11 | g4476.t1 | Coils | Coil | Coil | 530 | 544 | - |
| 7 | g4476.t1 | Gene3D | G3DSA:3.40.50.980 | - | 46 | 357 | 2.5E-110 |
| 8 | g4476.t1 | Gene3D | G3DSA:3.40.50.980 | - | 51 | 208 | 2.5E-110 |
| 10 | g4476.t1 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 358 | 435 | 2.5E-110 |
| 9 | g4476.t1 | Gene3D | G3DSA:3.30.300.30 | - | 436 | 542 | 2.8E-29 |
| 3 | g4476.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 8 | 538 | 2.0E-153 |
| 4 | g4476.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 8 | 538 | 2.0E-153 |
| 2 | g4476.t1 | Pfam | PF00501 | AMP-binding enzyme | 42 | 442 | 1.9E-77 |
| 1 | g4476.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 451 | 527 | 5.2E-14 |
| 6 | g4476.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 192 | 203 | - |
| 5 | g4476.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 21 | 537 | 3.92E-120 |
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