General information for g4475.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Luciferin 4-monooxygenase.
Parent gene
- The parent gene g4475 is located on chr_2: 2753390..2755165 (- 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 | g4475 | g4475.t1 | isoform | g4475.t1 | 2753390 | 2755165 |
| chr_2 | g4475 | g4475.t1 | exon | g4475.t1.exon1 | 2753390 | 2754429 |
| chr_2 | g4475 | g4475.t1 | cds | g4475.t1.CDS1 | 2753390 | 2754429 |
| chr_2 | g4475 | g4475.t1 | exon | g4475.t1.exon2 | 2754511 | 2754729 |
| chr_2 | g4475 | g4475.t1 | cds | g4475.t1.CDS2 | 2754511 | 2754729 |
| chr_2 | g4475 | g4475.t1 | exon | g4475.t1.exon3 | 2754786 | 2754993 |
| chr_2 | g4475 | g4475.t1 | cds | g4475.t1.CDS3 | 2754786 | 2754993 |
| chr_2 | g4475 | g4475.t1 | exon | g4475.t1.exon4 | 2755049 | 2755165 |
| chr_2 | g4475 | g4475.t1 | cds | g4475.t1.CDS4 | 2755049 | 2755165 |
| chr_2 | g4475 | g4475.t1 | TSS | g4475.t1 | NA | NA |
| chr_2 | g4475 | g4475.t1 | TTS | g4475.t1 | NA | NA |
Sequences
>g4475.t1 Gene=g4475 Length=1584
ATGAAAATTGAAAATAATGTTATTTATGGAGGAAATTATGATAAAAAATTTGAAAATATT
TCATTTGGTGAATTTATTTTAAGATCATTGAATAAAGGTGGTTATTGTGAATATTTGATA
AATGCTAAAAGTGGTTTAACTTGGACTTACGCTGATGTTTTAAGGGAAACAAAAAAATTT
GCAAATTCATTTCATACATTTGACATAAAACGAAATGATAAAATTGCAATTATCTCTGAA
AATCGTCATGAGATTGCAGCTATACATTTTGCTGCTTTTTGTTTGAATTCAATTGTTGCA
CCCATTAATTTTGCATATACTACAATGGAAATTAGACATGCTTTAAATTTGACACAACCA
AAAATTATATTTGTGTCAAATCTATCGGCAAAAAATTCGATTGATGCTTGCAAAGAGTTG
AAATTTGTCAAAAAAGTTGTGAATTTCGATGACAGATCATTTGTCAATTTCATTCAAAAA
TATCATTGCAATGATTTTAATTTAGAAGAAATTGTGAAGCAGCAAATTGATATCTACACA
CAAAGTCTGCCTAAAGGATGTGAATTAACACAAGGAAATTTATTCTTTACACTGGGACAA
TATCATAATATTCAGCAGACATTTAAACATTTTAAAAGATTCAATAGAACACTCAACATA
GCGCCATGGTTTCATGTAATTGGATTTGCAAATTTGTTTTTGTCACTATTTTCAAGTCAA
TTTTCCTGTGTTTATATACCAAAATTTAATCCGCATCTTTTTCTTCGTACGATTGAAAAG
TATAAAATTGTTAATATATTAGCACCACCACCAATTGTAATCTTGCTTGCAAAAAGTCCT
TTAGTTGATCAATATGATTTATCGAGTTTGAGATTGCTATCCTCTGGGGGTGCATCATTA
ACTGAAGAAATTGAAAATGAAATCAAATCACGATTCAAAAGCAACTTACAAATTTTTCAA
ACATATGGAATGACAGAAACGTTAACGCTAACAGCTTATCACAAGTTAGAGAATCCAATT
CAAAAATCTATTGGAAAGGTGTTAAAAGGAGTTTATGCAAAAGTAATTGACAATGATGGT
GTGGCTTTAGGTCCAAATAAAGCTGGTGAATTATGTTTCAAGGGACCAAATATAATGAAG
GAATATATTAACAATGCTAAAGCAACTGCAGAGACAATTGATAAAGATGATTTTCTGCAT
ACAGGTGATTTGGGTTATTATGATGAAAATTTTAATTTTTTTATCGTTGACCGATTGAAA
GAATTGATTAAATATAAAGCATATCAAGTTGCTCCAGCTGAAATTGAAGGACTTTTTTTG
TCACACCCGAAAATTAAAGATGCAGGTGTGATTGGTATTCCAAATGATGTTGTAGGTGAA
CTACCTTTTGCTTTTGTCGTTAAACTACCTGAAGTTGAACTTACCGAGAAAGAAGTGCAA
GATTTCATAAAAGAGAATGCAAGCAATGCCAAATGGTTACGAGGAGGCGTGGAATTTGTC
GATGAAATCCCTAAAAATCCAAGTGGTAAAATTTTGAGAAGAGAATTGAGAGAAGCCTAT
AAAATTTCAAAAGCAAAATTGTAA
>g4475.t1 Gene=g4475 Length=527
MKIENNVIYGGNYDKKFENISFGEFILRSLNKGGYCEYLINAKSGLTWTYADVLRETKKF
ANSFHTFDIKRNDKIAIISENRHEIAAIHFAAFCLNSIVAPINFAYTTMEIRHALNLTQP
KIIFVSNLSAKNSIDACKELKFVKKVVNFDDRSFVNFIQKYHCNDFNLEEIVKQQIDIYT
QSLPKGCELTQGNLFFTLGQYHNIQQTFKHFKRFNRTLNIAPWFHVIGFANLFLSLFSSQ
FSCVYIPKFNPHLFLRTIEKYKIVNILAPPPIVILLAKSPLVDQYDLSSLRLLSSGGASL
TEEIENEIKSRFKSNLQIFQTYGMTETLTLTAYHKLENPIQKSIGKVLKGVYAKVIDNDG
VALGPNKAGELCFKGPNIMKEYINNAKATAETIDKDDFLHTGDLGYYDENFNFFIVDRLK
ELIKYKAYQVAPAEIEGLFLSHPKIKDAGVIGIPNDVVGELPFAFVVKLPEVELTEKEVQ
DFIKENASNAKWLRGGVEFVDEIPKNPSGKILRRELREAYKISKAKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4475.t1 | Gene3D | G3DSA:3.40.50.980 | - | 48 | 338 | 1.7E-101 |
| 6 | g4475.t1 | Gene3D | G3DSA:3.40.50.980 | - | 50 | 190 | 1.7E-101 |
| 9 | g4475.t1 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 339 | 418 | 1.7E-101 |
| 8 | g4475.t1 | Gene3D | G3DSA:3.30.300.30 | - | 419 | 525 | 8.3E-29 |
| 3 | g4475.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 18 | 521 | 9.0E-138 |
| 4 | g4475.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 18 | 521 | 9.0E-138 |
| 2 | g4475.t1 | Pfam | PF00501 | AMP-binding enzyme | 43 | 425 | 1.7E-74 |
| 1 | g4475.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 434 | 510 | 1.8E-13 |
| 11 | g4475.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 222 | - |
| 12 | g4475.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 223 | 246 | - |
| 10 | g4475.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 247 | 527 | - |
| 5 | g4475.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 42 | 520 | 4.84E-110 |
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 transcript has been annotated with K01911 (o-succinylbenzoate—CoA ligase)
Pathway
- This transcript belongs to the following pathways
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