General information for g4476.t3
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.t3 | TTS | g4476.t3 | 2754992 | 2754992 |
| chr_2 | g4476 | g4476.t3 | isoform | g4476.t3 | 2755630 | 2757191 |
| chr_2 | g4476 | g4476.t3 | exon | g4476.t3.exon1 | 2755630 | 2756128 |
| chr_2 | g4476 | g4476.t3 | cds | g4476.t3.CDS1 | 2755631 | 2756128 |
| chr_2 | g4476 | g4476.t3 | exon | g4476.t3.exon2 | 2756193 | 2756413 |
| chr_2 | g4476 | g4476.t3 | cds | g4476.t3.CDS2 | 2756193 | 2756413 |
| chr_2 | g4476 | g4476.t3 | exon | g4476.t3.exon3 | 2756472 | 2756753 |
| chr_2 | g4476 | g4476.t3 | cds | g4476.t3.CDS3 | 2756472 | 2756753 |
| chr_2 | g4476 | g4476.t3 | exon | g4476.t3.exon4 | 2756809 | 2757016 |
| chr_2 | g4476 | g4476.t3 | cds | g4476.t3.CDS4 | 2756809 | 2757016 |
| chr_2 | g4476 | g4476.t3 | exon | g4476.t3.exon5 | 2757072 | 2757191 |
| chr_2 | g4476 | g4476.t3 | cds | g4476.t3.CDS5 | 2757072 | 2757191 |
| chr_2 | g4476 | g4476.t3 | TSS | g4476.t3 | 2757220 | 2757220 |
Sequences
>g4476.t3 Gene=g4476 Length=1330
ATGGATGATCCAAATATTATTTACGGTGGTGATTTTGAGAATAATTATTACTTAAATTTA
TCATCAATTGGTGAATTAATTTTAAAAAATTTAAAACTTGGTGGATCGAAACATGGTTTT
ATTAATGGTCAAACAGGAGAATCATGGAGTTATGATGAAATTCTTAAGTTTAGTATTAAA
ATTTCTCAAGCCTTGAATAATGTTGGAGTAAAACAAAACGATATAATATCAATTGTTGCT
GAAAACTGTCATCAATACATGACTGTTGCATGTGGAACATTTTTAATGAATGCAATTCTC
GCACCATTTAATTATACCTACACAAAGCGGGAACTCAAGCATGCTTTTGAATTGATAAAC
CCAAAGATTGTTTTCGTATCTTCAAGCACAGTAAAAAATGTAGGTTCTTTAAGTAAAGAA
TTTTCTTATATGAAACATATCATAACAATCGATAATTCAGAACATGAAAGTGCTATTCCA
CTCAAAAAATTCATTGAGAACTATTCAAATGCATCTTTTGACCTGCCTCAACGTTCAATA
AAAGCTATAGATAAGGAAAAGAAAACGGTGATAATTTTTCAAAGTAGTGGGACAACTGGT
TTACCAAAAGGAGTAGAAATTACACATATGAACATTCTTTCTTGTAAACAGGGTTATAAT
GATGATTTCAAGTATTTAAAACCCTATGGTGAAAATCTTTCAAATTTGGGCATTGCACCG
TGGTCGCATGTCATGGGCTTTATGGGTTCTTTTTTTGCTCTTTTGAGTCCCGAAAGAGTT
CATATTTTTCTACCTAAATTTGAGGGTGAAACCTATTTAAAATGTCTTGAGAAATATAAA
GTAAAAATTATTGCCGTTCCACCACCAATTATTGTGTTTCTTACTAAAACTCCACTATTT
GATAAATATGACTTGACAAATTTAAGAGTAATTTTTTCTGGAGCTGCACCATTAGCTAAA
GACGTTGAATTGGCTGCAATAAAAAGATTCAACAATAGAATCATCATTTGTCAAGGATAT
GGCATGTCTGAAACAACTTTGGGTGTAACTGGAACTTTTGTTCAACTAAAACATGGGTCA
GTTGGAAAAGTTGGTTATGGCATGTATGCAAAAGTAATTGACAGCAATGGAAAATCTTTA
GGTCCAAACAAAGTTGGTGAATTATGTTTCAAAGGTTCAAGAATTATGAAAGGATATTTT
AACAATGCTAAAGCAACTGCTGAAACAATTGATAAAGATGGTTGGTTGCATACAGGTGAT
TTGGGATATTTTGATAATGAACATCAATTTTTCATTGTTGACCGATTGAAAGAATTAATC
AAGTACAAAG
>g4476.t3 Gene=g4476 Length=443
MDDPNIIYGGDFENNYYLNLSSIGELILKNLKLGGSKHGFINGQTGESWSYDEILKFSIK
ISQALNNVGVKQNDIISIVAENCHQYMTVACGTFLMNAILAPFNYTYTKRELKHAFELIN
PKIVFVSSSTVKNVGSLSKEFSYMKHIITIDNSEHESAIPLKKFIENYSNASFDLPQRSI
KAIDKEKKTVIIFQSSGTTGLPKGVEITHMNILSCKQGYNDDFKYLKPYGENLSNLGIAP
WSHVMGFMGSFFALLSPERVHIFLPKFEGETYLKCLEKYKVKIIAVPPPIIVFLTKTPLF
DKYDLTNLRVIFSGAAPLAKDVELAAIKRFNNRIIICQGYGMSETTLGVTGTFVQLKHGS
VGKVGYGMYAKVIDSNGKSLGPNKVGELCFKGSRIMKGYFNNAKATAETIDKDGWLHTGD
LGYFDNEHQFFIVDRLKELIKYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4476.t3 | Gene3D | G3DSA:3.40.50.980 | - | 46 | 357 | 1.2E-110 |
| 7 | g4476.t3 | Gene3D | G3DSA:3.40.50.980 | - | 51 | 208 | 1.2E-110 |
| 8 | g4476.t3 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 358 | 435 | 1.2E-110 |
| 2 | g4476.t3 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 8 | 443 | 7.3E-113 |
| 3 | g4476.t3 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 8 | 443 | 7.3E-113 |
| 1 | g4476.t3 | Pfam | PF00501 | AMP-binding enzyme | 42 | 442 | 9.2E-78 |
| 5 | g4476.t3 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 192 | 203 | - |
| 4 | g4476.t3 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 21 | 442 | 6.93E-91 |
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 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