General information for g1085.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 g1085 is located on chr_3: 8061952..8063601 (+ 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_3 | g1085 | g1085.t1 | TSS | g1085.t1 | 8061910 | 8061910 |
| chr_3 | g1085 | g1085.t1 | isoform | g1085.t1 | 8061952 | 8063601 |
| chr_3 | g1085 | g1085.t1 | exon | g1085.t1.exon1 | 8061952 | 8063034 |
| chr_3 | g1085 | g1085.t1 | cds | g1085.t1.CDS1 | 8061952 | 8063034 |
| chr_3 | g1085 | g1085.t1 | exon | g1085.t1.exon2 | 8063092 | 8063601 |
| chr_3 | g1085 | g1085.t1 | cds | g1085.t1.CDS2 | 8063092 | 8063601 |
| chr_3 | g1085 | g1085.t1 | TTS | g1085.t1 | NA | NA |
Sequences
>g1085.t1 Gene=g1085 Length=1593
ATGTTCAAGCCAACTTTCAACAGAGCTACAAAAGTCTGGAGTGGTCCAAAAGTGCCACCA
ATCTTCAAACCTGATCAAAATCTTGGCCAATTGATTGTGAAAGTTCTTGAGCAAACTCCA
GATGCTGTGACACAAATTTCAGCTGATTCAAATGTTTCAGTAACTTGTGGTGAAATGCGA
GAAAGAATTTTGAAATTTGCAGTTCATTTGAATAATTTGGGACTTAAAGAAGGCGATGTT
ATTGGTGTTGTAGCTGGAAATACTGAAAATATTGCTCCAGTTGTTTTTGCTTGTTTTCTA
CTTGGGCTTCCTGTTAATCCTTTAGCACCGATCATGATTGAAAGTGACATTGTGCAAATG
TATTCAAAAACTAAACCAAAATTGATCTTTTGTGATGAGAAAAATTTAAAAACTGTTCAA
AATGCACTAGACATGATGAAAAGTGAAGCAAAAATTTATACAGTGATGGAAAAAGTTGAT
AATTATGAATGTGTAACTGAAATACTCAAGAACGATGTAAATTTTGATAATCTACTTTTA
CCAGAAGTTGATCCAAAATCAATTTTGATAATTCTTTGCTCATCTGGTTCAACTGGTTCT
CCAAAAGGAATTTGCAAGTCACATCGTGAAGTCTTATCAGCAATTTTTCCACTCTACAAC
AATCATTTAAATGAGAGGGCAATATTTTTTGTTATCTCGCCAGTTTTTTGGTTCAGTGGT
TTTCTTTTTCTTCTCATGTCTTCTTTATTCAATTATACGCGAGTTATCACAGCTGAACCT
TATAACCCAAAACGTTTTATTGATATTTTGAGTAAATACAACGTAAACTTGACAATGACA
CCTCCATTTTTACTAGTTAATTTACTACAAAGTGGTGAAATGAAAAAACTAGAAAAGATG
AAAGTTTGGTTGCTTGCTGGTGCGACAGTTTCAAAGGAAGTTTTTGAGAAATTTTTACCG
TTTATTCCAAATTCAATGCTTGTTAATGGTTATGCATGCACTGAAGAAAATGTTATGGCC
ATAAATTATGAAATGAGAAAATATGAAAGTTGTGGATTTCCTGTTCAAAATGTTGAAATT
CAGATCGCTGATGATGATGGAAACGCTTTAGAAAATAACCAAAATGGTGAAATTTATATT
AAAGTTCCAATTCACTTTTTGAATTATTTTGAAGAACCTGAAAAAACAAGAGAAGCATTT
AATGGTGATTGGTTTAAAACAGGCGATATTGGACATTTTGATGATGAAGGATTTCTATAC
ATTACTGACCGTAAAAAAGATTTGATGAAATTTCAAGGATATCAAGTGACTCCATCAGAA
ATTGAAACAATTATTAATGAACTAAAAGGTGTTGTAAGCAGTTGTGTTGTTGGAGTATTT
GATTCAGTCAACAGCAATGATATCATTCATGCTTTTGTGATTGTTGAAGATACTAAAAAT
ATTACAGAAGATCAAATTAAAATTTATGTCAATGAGAGAGTAATTGATCAGAAGAAAATT
CGAGGTGATGTTCATTTTGTTAAAAGTTTTCCTCTTGGAATAACTGGAAAAGTTGATAGA
AAAAAAGTTCGAGAAATGGCTCAAAGAACCTAA
>g1085.t1 Gene=g1085 Length=530
MFKPTFNRATKVWSGPKVPPIFKPDQNLGQLIVKVLEQTPDAVTQISADSNVSVTCGEMR
ERILKFAVHLNNLGLKEGDVIGVVAGNTENIAPVVFACFLLGLPVNPLAPIMIESDIVQM
YSKTKPKLIFCDEKNLKTVQNALDMMKSEAKIYTVMEKVDNYECVTEILKNDVNFDNLLL
PEVDPKSILIILCSSGSTGSPKGICKSHREVLSAIFPLYNNHLNERAIFFVISPVFWFSG
FLFLLMSSLFNYTRVITAEPYNPKRFIDILSKYNVNLTMTPPFLLVNLLQSGEMKKLEKM
KVWLLAGATVSKEVFEKFLPFIPNSMLVNGYACTEENVMAINYEMRKYESCGFPVQNVEI
QIADDDGNALENNQNGEIYIKVPIHFLNYFEEPEKTREAFNGDWFKTGDIGHFDDEGFLY
ITDRKKDLMKFQGYQVTPSEIETIINELKGVVSSCVVGVFDSVNSNDIIHAFVIVEDTKN
ITEDQIKIYVNERVIDQKKIRGDVHFVKSFPLGITGKVDRKKVREMAQRT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1085.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 10 | 427 | 7.3E-92 |
| 9 | g1085.t1 | Gene3D | G3DSA:3.30.300.30 | - | 428 | 530 | 7.0E-21 |
| 3 | g1085.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 4 | 529 | 5.2E-134 |
| 4 | g1085.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 4 | 529 | 5.2E-134 |
| 2 | g1085.t1 | Pfam | PF00501 | AMP-binding enzyme | 36 | 431 | 3.3E-77 |
| 1 | g1085.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 440 | 517 | 1.9E-7 |
| 11 | g1085.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 226 | - |
| 14 | g1085.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 250 | - |
| 12 | g1085.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 251 | 269 | - |
| 13 | g1085.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 270 | 289 | - |
| 10 | g1085.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 290 | 530 | - |
| 7 | g1085.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 191 | 202 | - |
| 6 | g1085.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 12 | 528 | 7.06E-107 |
| 5 | g1085.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 228 | 250 | - |
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