General information for g15479.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Luciferin 4-monooxygenase.
Parent gene
- The parent gene g15479 is located on chr_4: 5592878..5593676 (- 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_4 | g15479 | g15479.t3 | TTS | g15479.t3 | 5591571 | 5591571 |
| chr_4 | g15479 | g15479.t3 | isoform | g15479.t3 | 5591728 | 5593676 |
| chr_4 | g15479 | g15479.t3 | exon | g15479.t3.exon1 | 5591728 | 5592014 |
| chr_4 | g15479 | g15479.t3 | cds | g15479.t3.CDS1 | 5591874 | 5592014 |
| chr_4 | g15479 | g15479.t3 | exon | g15479.t3.exon2 | 5592087 | 5592396 |
| chr_4 | g15479 | g15479.t3 | cds | g15479.t3.CDS2 | 5592087 | 5592396 |
| chr_4 | g15479 | g15479.t3 | exon | g15479.t3.exon3 | 5592510 | 5593215 |
| chr_4 | g15479 | g15479.t3 | cds | g15479.t3.CDS3 | 5592510 | 5592874 |
| chr_4 | g15479 | g15479.t3 | exon | g15479.t3.exon4 | 5593270 | 5593477 |
| chr_4 | g15479 | g15479.t3 | exon | g15479.t3.exon5 | 5593524 | 5593676 |
| chr_4 | g15479 | g15479.t3 | TSS | g15479.t3 | 5593742 | 5593742 |
Sequences
>g15479.t3 Gene=g15479 Length=1664
ATGCAGTGTGAAGACAATCCAAATATAATTTATGGTGGTGATGTTGAAGATGCATATGAA
GAAGGAGAAAAAAGAAATTTTGAATCACTTGGTCAGATGATTTTGGAAAATTTAGCATTG
GGAAATAATAGACCTTTATTTGTAAGATGATTTATTAATGGTGCAACCGATGAAACCATA
ACTTTTAATGATGTAAGAAAAAACACAATAACATTTGCAAAAGCTTTACATGGTTTTGGT
ATAAAAGAAAATGATACTGTTGCAATTATAAGTGAAAATCGACTTGAATTTCCATCAATA
TCTTATGGTGCTATTTGTTTGAACGCTATTGTAGCACCAATAAATAGCAGCTATACTGAA
AGAGAACTCAAGCATGCTCTTAACTTATCAAAGCCAAAGATTATTTTTACTTCAAAATTG
ACATCACAAAAAATAATTGCAGTCTGCAAGGAGCTTAAATTTATCCAAAAAGTAATTTTA
ATTGACAACAATGATCAAAAAAGTGAAAATTCACTCACAATTGGTGAATTTGTCAAAAAA
TATGAAGACAAAAATTTCAATGTTGAAAATTTTGTTGCTAAAAAAGTTGACACAGAAAAT
CTTACAACTTTAATTTTACTATCAAGCGGCACAACAGGTTTAGCAAAAGCAGTTGAGATA
ACTCAATTAAATATTATGTCAACTATAGACAGTGCTAAAGTAATGTTTGAAGTCATGAAA
ATGCTTTATGAAAAAGATGTAGTTTATTTCAATATCGCACCATGGTTTCACACACTTGGT
TACATTTCAATGTGTCTTCTTGCTTGCTCAAGTTCATCTGTTTTTATTTTTCTTCCTAAA
TTTGAAGAAAGAACATTTTTACGAGCAATTGAAAAATATAAAGTCAATGTATTGACAGTT
GTACCACCAATTATGTTGTTACTTGCAAAAAGTCCTTTAGTAGATGAATATGACTTATCA
AGTATTTTAGAAATTGGATGTGGAGCTGCACATCTTTCTTCTGAAGTTGAGGAACAAGTT
AGAAATCGTTTAAAAAATGTTACAGTTAGACAAGGATATGGATTAAGTGAAGCAACTTAC
TCCACATTAGGAGCAAGTGTTCTCGTAAAACCAGGTTCCGTAGGACAACCAGTAAGAGGA
ATTTATGCAAAAATTGTTGATGAAAATAATGTTGCATTAGGACCAAATAAAGTTGGTGAA
CTTTGTTTCAAAGGTCCAAGAATTATGAAAGGTTACAAAAGTAATAAATTAGCAACAAAT
GAAATGATTGATAAAGATGGTTGGTTGCATACTGGTGATTTGGGATATTACGATGAAGAT
TTTCAATTTTACATTGTTGATCGATTGAAAGAATTGATTAAATACAAAGGTAAAAACCCG
AACTTGAAGGGCTTTTGCTGTCAAATCCTAAAATTAAAGATGCTGGTGTTATTGGAATTC
CTGATGATTTTGCTGGTGAACTTCCATTCGCATTTATTGTTAAACAAGAAAATGTTGAAT
TATCAGAGCAAGAAGTGAAAAATTTTGTTAAGGAAAATGCAAGCAATGTTAAATGGTTGA
GAGGTGGAGTAAAATTCATTGATGAAATACCAAAAACTCAAAGTGGCAAAATATTGAGAC
GAGAATTGAAAGATTTATACAAGAGTACAAAATCAAAATTGTAA
>g15479.t3 Gene=g15479 Length=271
MFEVMKMLYEKDVVYFNIAPWFHTLGYISMCLLACSSSSVFIFLPKFEERTFLRAIEKYK
VNVLTVVPPIMLLLAKSPLVDEYDLSSILEIGCGAAHLSSEVEEQVRNRLKNVTVRQGYG
LSEATYSTLGASVLVKPGSVGQPVRGIYAKIVDENNVALGPNKVGELCFKGPRIMKGYKS
NKLATNEMIDKDGWLHTGDLGYYDEDFQFYIVDRLKELIKYKGKNPNLKGFCCQILKLKM
LVLLEFLMILLVNFHSHLLLNKKMLNYQSKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g15479.t3 | Gene3D | G3DSA:3.40.50.980 | - | 2 | 128 | 5.9E-40 |
| 8 | g15479.t3 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 129 | 214 | 1.4E-29 |
| 2 | g15479.t3 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 9 | 223 | 3.4E-73 |
| 3 | g15479.t3 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 9 | 223 | 3.4E-73 |
| 1 | g15479.t3 | Pfam | PF00501 | AMP-binding enzyme | 11 | 221 | 6.1E-50 |
| 11 | g15479.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 13 | g15479.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 44 | - |
| 9 | g15479.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 45 | 240 | - |
| 12 | g15479.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 241 | 260 | - |
| 10 | g15479.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 261 | 271 | - |
| 6 | g15479.t3 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 11 | 225 | 9.94E-57 |
| 5 | g15479.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
| 4 | g15479.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 241 | 260 | - |
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