General information for g17100.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 g17100 is located on chr_4: 12469530..12472446 (- 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 | g17100 | g17100.t1 | isoform | g17100.t1 | 12466744 | 12472446 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon1 | 12466744 | 12467259 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS1 | 12466744 | 12467259 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon2 | 12467317 | 12468176 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS2 | 12467317 | 12468176 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon3 | 12469794 | 12469814 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS3 | 12469794 | 12469814 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon4 | 12469876 | 12470158 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS4 | 12469876 | 12470158 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon5 | 12471754 | 12471825 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS5 | 12471754 | 12471825 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon6 | 12471892 | 12472095 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS6 | 12471892 | 12472095 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon7 | 12472316 | 12472364 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS7 | 12472316 | 12472364 |
| chr_4 | g17100 | g17100.t1 | exon | g17100.t1.exon8 | 12472436 | 12472446 |
| chr_4 | g17100 | g17100.t1 | cds | g17100.t1.CDS8 | 12472436 | 12472446 |
| chr_4 | g17100 | g17100.t1 | TSS | g17100.t1 | NA | NA |
| chr_4 | g17100 | g17100.t1 | TTS | g17100.t1 | NA | NA |
Sequences
>g17100.t1 Gene=g17100 Length=2016
ATGTATTGCGCAAAAAAGTCATTCAAATTAACATCTTCTGGTGGGAAATTTATTTATAAG
GAATACTTCTCAATAAAAGTCATCTGTCCAACTCCAGAAGTAGCAAAAAATTGGATTGAT
TGTTTTGAAAAAGTTGGAATAAGCGTCAGACAAAATTCACCTTCATTGTTTCATTTTAGT
TTAAATGACAGAAATGATGAGGAAACAAAACTTGCAAATGGATCTCCTAAAAATACTTTA
ATGAAAAAGCAAGTTAAGAATAAAAAAATAAAAAAAATTTCAGCCAGTTCAGATGTTGAA
ATTGTTAGAAATTTAGTCGAGTCTTATCTTACAATTAATTCAAAAGATAATTTAAGCAAC
ATAGACTTTGAACTTGTCAGAAATTTAGTCGAATCTTATCTTACAATTGTGATTAAAACT
TTAAGAGACAGAATTCCAAAAACAATAACTTTTCTTTTAATCAACAAACTTAATGAATAC
ATTGAGCATAATTTGGTTTCTTATTTTTATGAAAATGACTTGGTTGATGAATTAATGTCA
AGATCTGATCTTGATAATGAAAAATATGAAAAATTAATGTCAATGAAAAATGCATGCAAT
GAAGCAATAAAAGTTATTGATGAGCAAATAGTGTTGTTAATCTTGGACTCAAACAAAGGT
GATGTTGTTGGAATTGTTGCTGCAAATACTGAAAATCTTGCTCCAGCTGTTTTTGCTTGC
TTTTTACTTGGACTTCCTGTCAATCCTTTGGCACCAATTATGATTGAAAGTGACATCGTG
CATATGTTTAGCAAAACTAAACCAAAATTGATTCTTTGTGATGAAAATTGTTTAAAAATT
GTTCAAAATGCTGTGAATATGATGAAAAGTGATGCAAAAATTATTACAGTGATGGAAGAT
GTTGAAAATTATGATTCAGTGACAAAAATATTAAATAGAGCAGCAGAGAAAGATTTTCAT
TACCCTGAAATTGATTCGAATTCAGTTTTGGCAATTTTATGTTCTTCAGGCTCTACAAGT
TTACCAAAAGGAGTATGCAAGACTCACAAAGAATTTATCATTGCTGCAGATTATCATGAT
TATAGTTTAGAATCGTTGATAATGTTCCAATTGACAACTATTTATTGGATTACTGGTTTT
TATTTTTTGATTTATTCAACACTTTACCGATATACTCGAGTCATCACTGCTCAACCGTAT
CATCCAAAGCAATTTTTTGATATACTTAAAGACTATAAAATATCAATGGTTTCGAGTGCT
CCATTTATAGTTTCTAATTTAATGGATAGCGGATTTTCGATGCCACTCGAACACATGAGA
TGTTGGTTAATTGGTGGTGCAAAAGTAACAACAAAACTCATTGAAAATTTTAAACCATTT
GTTCCTAATGCTCTGTTAGTCCACACATATGCTAGCACAGAAGCAAATTTGATTGCTTTC
AATTTGAATGGAAGAAAATTTGAAAGTTCTGGACAACCTGTTCCAAATACCAGCATTAAA
ATTGTCGATGATGATGGAAATGCTTTGGATAATTTTCAACAAGGTGAAATTTGTGTCAAA
CGCGAAGTTAAATTTGCTGGATATTTTGATGATCTTGAGAAGACAAAAGAAGCTTTTGAT
GGTGAATGGTTTAAAACAGGCGACATTGGATATTTTGATGATGAAGGATTTTTTTATTTT
ATTGACCGTAAAAAAGAGCTTTTGAAATATCACAATTTTCAAGTTACACCATCAGAATTA
GAAGCAATCATAAATGAAATTGATGGAGTTATGAGCAGTTGTGTTGTTGGAGTTTTAAAA
GAAAATTCTGGAAATGACATCATTCATGCTTTTGTAATTGTTGATGAATCAAGTGGATTA
ACAGAAAATTTTATTTTAAATTATGTCAATTCAAAAGTCATTGAGCAAAAGAAACTTCGT
GGTGGTGTTCATTTTATTGGAACTTTTCCATTGGGGAAGACAGGGAAAATAGACAAGAAA
TTTTTAAAAATGAAGGCTGAAGAAATTAATAATTAA
>g17100.t1 Gene=g17100 Length=671
MYCAKKSFKLTSSGGKFIYKEYFSIKVICPTPEVAKNWIDCFEKVGISVRQNSPSLFHFS
LNDRNDEETKLANGSPKNTLMKKQVKNKKIKKISASSDVEIVRNLVESYLTINSKDNLSN
IDFELVRNLVESYLTIVIKTLRDRIPKTITFLLINKLNEYIEHNLVSYFYENDLVDELMS
RSDLDNEKYEKLMSMKNACNEAIKVIDEQIVLLILDSNKGDVVGIVAANTENLAPAVFAC
FLLGLPVNPLAPIMIESDIVHMFSKTKPKLILCDENCLKIVQNAVNMMKSDAKIITVMED
VENYDSVTKILNRAAEKDFHYPEIDSNSVLAILCSSGSTSLPKGVCKTHKEFIIAADYHD
YSLESLIMFQLTTIYWITGFYFLIYSTLYRYTRVITAQPYHPKQFFDILKDYKISMVSSA
PFIVSNLMDSGFSMPLEHMRCWLIGGAKVTTKLIENFKPFVPNALLVHTYASTEANLIAF
NLNGRKFESSGQPVPNTSIKIVDDDGNALDNFQQGEICVKREVKFAGYFDDLEKTKEAFD
GEWFKTGDIGYFDDEGFFYFIDRKKELLKYHNFQVTPSELEAIINEIDGVMSSCVVGVLK
ENSGNDIIHAFVIVDESSGLTENFILNYVNSKVIEQKKLRGGVHFIGTFPLGKTGKIDKK
FLKMKAEEINN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g17100.t1 | Gene3D | G3DSA:1.20.120.1240 | - | 78 | 180 | 1.3E-12 |
| 6 | g17100.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 182 | 566 | 2.6E-80 |
| 7 | g17100.t1 | Gene3D | G3DSA:3.30.300.30 | - | 567 | 670 | 2.5E-15 |
| 3 | g17100.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 196 | 663 | 8.1E-114 |
| 4 | g17100.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 196 | 663 | 8.1E-114 |
| 1 | g17100.t1 | Pfam | PF02212 | Dynamin GTPase effector domain | 121 | 208 | 2.7E-15 |
| 2 | g17100.t1 | Pfam | PF00501 | AMP-binding enzyme | 212 | 570 | 1.0E-65 |
| 10 | g17100.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 365 | - |
| 11 | g17100.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 384 | - |
| 9 | g17100.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 385 | 671 | - |
| 14 | g17100.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 332 | 343 | - |
| 16 | g17100.t1 | ProSiteProfiles | PS51388 | GED domain profile. | 123 | 214 | 13.528 |
| 15 | g17100.t1 | SMART | SM00302 | GED_2 | 118 | 209 | 2.7E-5 |
| 5 | g17100.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 214 | 665 | 4.06E-90 |
| 12 | g17100.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 233 | 255 | - |
| 13 | g17100.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 366 | 388 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005525 | GTP binding | MF |
| GO:0003924 | GTPase activity | MF |
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.
