General information for g16741.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Luciferin 4-monooxygenase.
Parent gene
- The parent gene g16741 is located on chr_4: 10773477..10773858 (+ 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 | g16741 | g16741.t3 | TSS | g16741.t3 | 10771847 | 10771847 |
| chr_4 | g16741 | g16741.t3 | isoform | g16741.t3 | 10771893 | 10773858 |
| chr_4 | g16741 | g16741.t3 | exon | g16741.t3.exon1 | 10771893 | 10772030 |
| chr_4 | g16741 | g16741.t3 | cds | g16741.t3.CDS1 | 10771996 | 10772030 |
| chr_4 | g16741 | g16741.t3 | exon | g16741.t3.exon2 | 10772098 | 10772300 |
| chr_4 | g16741 | g16741.t3 | cds | g16741.t3.CDS2 | 10772098 | 10772300 |
| chr_4 | g16741 | g16741.t3 | exon | g16741.t3.exon3 | 10772482 | 10773486 |
| chr_4 | g16741 | g16741.t3 | cds | g16741.t3.CDS3 | 10772482 | 10773486 |
| chr_4 | g16741 | g16741.t3 | exon | g16741.t3.exon4 | 10773554 | 10773858 |
| chr_4 | g16741 | g16741.t3 | cds | g16741.t3.CDS4 | 10773554 | 10773858 |
| chr_4 | g16741 | g16741.t3 | TTS | g16741.t3 | 10773938 | 10773938 |
Sequences
>g16741.t3 Gene=g16741 Length=1651
ATGCAAACTGAAAATGATCCAAATATTTTATATGGCGGTGACTATAGTGAATCAAATGAG
CCATTAGATGAAAATCGTGGATCACTTGGTGCTGTGATTTTAAATGATCTTTTACTCGGT
GGTGATCAAACTTTATTTTGGAGTGACCGATAAAAAATGGACTTATAATGATGTTCGTGT
TGAATCAATGAAAGCTGCAAGAATTCTTTATGGTGTTGGATTACGTCAAAATGATTCAAT
TGCAATTCTTAGTGAAAACCGAATTGAATTTCCGATAATTTCTTTTGGTGCTCTTTATTT
GAATGCTGTTGTTGCTCCAATTAATGTCACTTATACTGAAAGAGAGCTCACACATGCTTT
AAATTTATCAAGACCAAAAATTGTTTTTACTTCGGCATTTGCAGCTAAATTAGTTACATC
TGTATGCAACAAATTAGATTTTGTCAAAACAATTGTTCATTTAGATGGAAATAAAAGTGA
AGGCAAAATAAAATCAATGAATGATTTTATAAAAAATGAGGATAAAAATTTCAATGTTGA
AGCAAATGCGAGTAAAAAAGTTGACATAAAAAATCAACTTTCATTCATCATGATGTCATC
AGGAACGACTGGAATTGCAAAAGGAGTGCAACAAACACAAGAAAATGTTTTGAGTATAAT
TCAAAGTTATCGTGACATGTTTGTGTTATTTAGAATGCTTCATGATACAAAATCTATAAT
TTTAAATATTGCACCATTCTTTCATGGATTTGGTTTCATTTCAATGTTGTTAATTTCATG
CTCAAGAGAAGCAACTGCTGTTTTTCTACCAAGATTTGAAGAAAATGCATTTTTTAAAGC
AATTGAGAAGCATAAAGTCAATATCATCACTGTTGTTCCACCTATTATGGTTTTACTTGC
TAAAAGTCCACTTGTTGATAAATATGACTTATCAAGTATTAAAGACATCGGAAGTGGTGC
AGCACATTTGTCAGTAGAAATTGAAGAGCAAGTTATGAAAAGATTCAAAGGACAAGTGAC
GATAAGACAAGGTTATGGCATGACAGAATCAGTTTTTGGCACTTTAGGTGGAACTGTTTT
ACTTAAACCTGGTTCTGTTGGTCAACCTATGAAAGGCGTCTATGCGAAAGTAATTGATGA
AAATGGAAATTCATTGGGACCAAATAAAGTTGGTGAATTGTGCTTTAAAAGCACTCGAAT
TATGAAAGGATATGTCAATGATGAAAAAGCAACAAGTGAAATTATTGACAAAGATGGTTG
GTTGCATACTGGCGACTTGGGATATTATGATGACGATTTTCAATTTTTCATTGTTGATCG
ATTGAAAGAGTTGATTAAATACAAAGCTTTTCAGGTTCCACCAGCAGAACTTGAAGCTCT
TTTGTTGAAAAATCCTAAAATTAAAGACGTTGGAGTTATTGGAATTCCTGATGAAGTTGC
TGGTGAACTTCCTTTTGCATTTGTTGTGAAGCAACCTGGAGTTGAACTAACAGAAGAAGA
AGTAAAAGATTTTGTTGCTAAAAATGCAAGCAATGCAAAATGGCTAAGAGGTGGCGTGAA
ATTTATTGATGAAATCCCTAAAAATTTGAGTGGAAAAATTTTAAGAAAAGACTTGAGAGA
TTTGTATAAAAATACAAAATCTAAATTGTAA
>g16741.t3 Gene=g16741 Length=515
MIFYSVVIKLYFGVTDKKWTYNDVRVESMKAARILYGVGLRQNDSIAILSENRIEFPIIS
FGALYLNAVVAPINVTYTERELTHALNLSRPKIVFTSAFAAKLVTSVCNKLDFVKTIVHL
DGNKSEGKIKSMNDFIKNEDKNFNVEANASKKVDIKNQLSFIMMSSGTTGIAKGVQQTQE
NVLSIIQSYRDMFVLFRMLHDTKSIILNIAPFFHGFGFISMLLISCSREATAVFLPRFEE
NAFFKAIEKHKVNIITVVPPIMVLLAKSPLVDKYDLSSIKDIGSGAAHLSVEIEEQVMKR
FKGQVTIRQGYGMTESVFGTLGGTVLLKPGSVGQPMKGVYAKVIDENGNSLGPNKVGELC
FKSTRIMKGYVNDEKATSEIIDKDGWLHTGDLGYYDDDFQFFIVDRLKELIKYKAFQVPP
AELEALLLKNPKIKDVGVIGIPDEVAGELPFAFVVKQPGVELTEEEVKDFVAKNASNAKW
LRGGVKFIDEIPKNLSGKILRKDLRDLYKNTKSKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g16741.t3 | Gene3D | G3DSA:3.40.50.980 | - | 17 | 328 | 3.5E-118 |
| 7 | g16741.t3 | Gene3D | G3DSA:3.40.50.980 | - | 21 | 178 | 3.5E-118 |
| 10 | g16741.t3 | Gene3D | G3DSA:2.30.38.10 | Luciferase; Domain 3 | 329 | 406 | 3.5E-118 |
| 9 | g16741.t3 | Gene3D | G3DSA:3.30.300.30 | - | 407 | 514 | 5.9E-29 |
| 3 | g16741.t3 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 14 | 514 | 6.3E-158 |
| 4 | g16741.t3 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 14 | 514 | 6.3E-158 |
| 2 | g16741.t3 | Pfam | PF00501 | AMP-binding enzyme | 13 | 413 | 2.0E-89 |
| 1 | g16741.t3 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 422 | 498 | 1.6E-14 |
| 11 | g16741.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 204 | - |
| 13 | g16741.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 205 | 224 | - |
| 12 | g16741.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 225 | 515 | - |
| 6 | g16741.t3 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 162 | 173 | - |
| 5 | g16741.t3 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 15 | 510 | 2.49E-124 |
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 K01896 (medium-chain acyl-CoA synthetase)
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.
