General information for g9820.t1
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 g9820 is located on chr_1: 5383679..5385434 (+ 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 | g9820 | g9820.t1 | TSS | g9820.t1 | 5383598 | 5383598 |
| chr_1 | g9820 | g9820.t1 | isoform | g9820.t1 | 5383679 | 5385434 |
| chr_1 | g9820 | g9820.t1 | exon | g9820.t1.exon1 | 5383679 | 5384701 |
| chr_1 | g9820 | g9820.t1 | cds | g9820.t1.CDS1 | 5383679 | 5384701 |
| chr_1 | g9820 | g9820.t1 | exon | g9820.t1.exon2 | 5384756 | 5385061 |
| chr_1 | g9820 | g9820.t1 | cds | g9820.t1.CDS2 | 5384756 | 5385061 |
| chr_1 | g9820 | g9820.t1 | exon | g9820.t1.exon3 | 5385117 | 5385434 |
| chr_1 | g9820 | g9820.t1 | cds | g9820.t1.CDS3 | 5385117 | 5385434 |
| chr_1 | g9820 | g9820.t1 | TTS | g9820.t1 | NA | NA |
Sequences
>g9820.t1 Gene=g9820 Length=1647
ATGGCAACTGGAACTTTTAATCCATCGACTAAAATTTGGACTGGAAATATGCACCCCTAT
CGTTATCCACTTGACATTTATTTGGGCGAAAAATTACTAGAAGCATTAGATTCAACACCA
GATAGAGTATTGCAAATTAGTCATGAAGAAGAAAAAGATTTAACATGCGAAGAAGTAAAA
ATAACAAGCATTAGAGTTGCACAAAATTTAAAAAGATTAGGAATTAAGGCAGATGATGTA
GTTGGATTTATTTGTAGAAATTCAAGTACAATTATTTCACTAATTTACGGTTGCGTTCTG
ATTGGAGCTCCTATTAATCCCCTTCACGTATCATTCGATAAGGAAAAAATTCAACAAATG
TTTCGTCAAACAAAACCTGTACTTGTATTTTGCGATCATGATTTGTTTGAATTAACTAAA
GAGGCACTTCGCGAGATAAAAAGTAATGCGATGATTTTTACTTTACTTAAGAAAATTCCT
GTTGTGCCTTTTGTAAATGAACTTTTAATTCCAACCGGATCAGAATATCATTATAAGCCA
GAAAAATTTGAAAAGAGAGCGTCAGAGAAATTAGTGGCAATTATTTGTACATCAGAATCA
TCGAAAGGTGAAAATTTAAAAGGAGTTTGTATGCCTCACACTGCCATATTAACTTTCATA
GATATGAAATGCAGATCACTCAAAGAATTTAGATCATTAAATTTTTGCTCAATTTATTTA
GCTGCCGGAATAGTTGGAATTTATTTAGCACCTTTTAGAGCAGGAGAAACAAGAATTTCA
TCAATTCAACCTTTTAATCCTGAATTATGTGTGAAATTAATTGAGCAATATAAAGTGAAT
GTCGCGGTAGTGCAGCCACTTTTCTTAAATGCTCTTATAAATTCCTCTGTCGCACAAACT
GGTGATTTCTCAAGCATTATTTTATTTTCATGTATTGGATCAGTTGTAACAGAAAACTTA
CGTGAAAGGTTTAAACAAAAATTTCCTGACAAACCTTTATTAGTTAGTTATGGTACTAAT
GAGGTTTTTATTGCATCAATGTTTCCCGGAGAATCAAGTGATGGATTAAAAGTTGGAAGA
ACTTTTACAAATATTCAATTAAAAGTAGCTGATGAAGAAGGCAATCCATTAGACTTGGAA
GAAGTTGGTGAAATTTTAGTAAAACCTGAGTTTAAATTTCAAGGTTATTACAATAGCCCT
GAGACAACAGAAGAAATTGTTGATAGAGATGGATTTTTAAAGACTGGTGATATGGGTTAT
ATGGATAAAGATGGTTACGTTTATATTCTCGATAAAAATAAAGATATTTTCAAATATAAG
GATACATTAATTACGCCATCAGAGATTGAAAGTGTAATTGAAAGTATAGAAGGAGTGAGT
AGTGTCTCAGTTGTGGGAATTCCTGATCAAAAAGTTATTAATTTACCAGCCGCAGTAATT
GTCAAAAAACAAGGACATGAAAGTTTGGCAGAACATGATATTCTTTCTGTTGTAGCGGAA
AAATTACCTCACACAAAACAACTATATGGTGGTGTATATTTTATCAGTGAAGAAGAAATG
CCGATAGGTCCAAAGGCAAGAATATTAAGGCAATCGGTTCGTGATATCGCAATTGCCAAA
TATAGAAACCGTATAAATGTGAAATGA
>g9820.t1 Gene=g9820 Length=548
MATGTFNPSTKIWTGNMHPYRYPLDIYLGEKLLEALDSTPDRVLQISHEEEKDLTCEEVK
ITSIRVAQNLKRLGIKADDVVGFICRNSSTIISLIYGCVLIGAPINPLHVSFDKEKIQQM
FRQTKPVLVFCDHDLFELTKEALREIKSNAMIFTLLKKIPVVPFVNELLIPTGSEYHYKP
EKFEKRASEKLVAIICTSESSKGENLKGVCMPHTAILTFIDMKCRSLKEFRSLNFCSIYL
AAGIVGIYLAPFRAGETRISSIQPFNPELCVKLIEQYKVNVAVVQPLFLNALINSSVAQT
GDFSSIILFSCIGSVVTENLRERFKQKFPDKPLLVSYGTNEVFIASMFPGESSDGLKVGR
TFTNIQLKVADEEGNPLDLEEVGEILVKPEFKFQGYYNSPETTEEIVDRDGFLKTGDMGY
MDKDGYVYILDKNKDIFKYKDTLITPSEIESVIESIEGVSSVSVVGIPDQKVINLPAAVI
VKKQGHESLAEHDILSVVAEKLPHTKQLYGGVYFISEEEMPIGPKARILRQSVRDIAIAK
YRNRINVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g9820.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 11 | 435 | 6.5E-82 |
| 9 | g9820.t1 | Gene3D | G3DSA:3.30.300.30 | - | 436 | 540 | 4.2E-15 |
| 3 | g9820.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 4 | 539 | 1.5E-123 |
| 4 | g9820.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 4 | 539 | 1.5E-123 |
| 2 | g9820.t1 | Pfam | PF00501 | AMP-binding enzyme | 35 | 439 | 2.2E-61 |
| 1 | g9820.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 448 | 516 | 3.3E-6 |
| 10 | g9820.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 231 | - |
| 12 | g9820.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 232 | 250 | - |
| 11 | g9820.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 251 | 548 | - |
| 7 | g9820.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 12 | 537 | 1.11E-86 |
| 5 | g9820.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 112 | - |
| 6 | g9820.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 230 | 252 | - |
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