General information for g9818.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 4-coumarate–CoA ligase-like 6.
Parent gene
- The parent gene g9818 is located on chr_1: 5379352..5381081 (+ 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 | g9818 | g9818.t1 | isoform | g9818.t1 | 5379352 | 5381081 |
| chr_1 | g9818 | g9818.t1 | exon | g9818.t1.exon1 | 5379352 | 5379963 |
| chr_1 | g9818 | g9818.t1 | cds | g9818.t1.CDS1 | 5379352 | 5379963 |
| chr_1 | g9818 | g9818.t1 | exon | g9818.t1.exon2 | 5380023 | 5380583 |
| chr_1 | g9818 | g9818.t1 | cds | g9818.t1.CDS2 | 5380023 | 5380583 |
| chr_1 | g9818 | g9818.t1 | exon | g9818.t1.exon3 | 5380635 | 5381081 |
| chr_1 | g9818 | g9818.t1 | cds | g9818.t1.CDS3 | 5380635 | 5381081 |
| chr_1 | g9818 | g9818.t1 | TSS | g9818.t1 | NA | NA |
| chr_1 | g9818 | g9818.t1 | TTS | g9818.t1 | NA | NA |
Sequences
>g9818.t1 Gene=g9818 Length=1620
ATGCAATCAAAGTTTAATTCCAATACAAAAATTTGGCATGGTCCATCTTATACTCATCCT
TTTCCTATGGATTACATGCTGAGTGATTACATTTATGAAAAATTATGTAGTGATTCAGAA
AATATTGTTCAAATCAATGCAGATGACGATTCTAAACTTAAAGCTAAAGAATTGAAACTT
ATGAGTATTCGTGTGGCTCAGAATTTAGTAAAAATTGGCGTAAAAGAAGATGATGTTGTA
GGAATGATAACTCATCAATCTCATTTCACTACAAGCTTCATTTTGGGTTGTGTTTTTATG
GGTGCTTTACCTAATCCTCTTGATGAAAACCTTAGTGAAAGTGACATTAGAATTATCTAC
AAACAAACTAAACCAAAAATAATTATTTGCGATGATAAAGCAATTTATAAACTTGAGAGT
GCTCTAGAAAATGTCGACTTTGAGTTTGTAATTTATTCAACATCACGTGAACATGAAAAA
TATCAATCTACAAAAATTTTTCTAAATCCTACAAATGTGGAAGAAAATTTTATGATGCCG
AAATTTTCGAAACCTTCTGATGAAAAATTAGTTTGTATTCTTTGTTCTTCAGGTACTACA
GGAACGAGCAAAGGCGTGACAATAACTCACGCGAGTTATTTTTTATGGCTTGCATTGACT
CCAAATTCAAAAGCTTCAGTTTCTTTATGCTTTAGCCCAATTTATTGGGGTTCAGGGTTT
TTCAGGAATATAACAGCTCCGCTTTCATCAACCAATCTTCGAATTTTCACGAAAAAACCG
TTTGATGTGAGCACTTTTATCAGCATTGTTGAACACTACAAAGTTACAAATGTGAATATG
CCACCTTCCTCATTAGCTGTCCTATTGAATTCTGAAGAATTCTTATCGTCAAATACTAAA
AGTTTGCAAGTATTTACAATACTTGGATCAATTGTATCAAAAGTTTTGCGAGAGAAATTT
TCGAAAATATTTCCTGATAAAATGATGATGGTTCCATATGGAATGACAGAAGTTTTAATT
TCAATGACAAAACCTAATGAGTACAAGCAAGAATATGCAGTTGGGTCTTTTCTCTTTTTC
AATGTTCAAGTCAAAATTATTGATGAAAACGGAATATCTTTAGATAATGGCAAACATGGG
GAAATTTGTGCTAAATCATCATTTAAATTCCATGGTTATTACAACAATGCAGAAGCAACA
TCAATTGCATTTGATAATGAAGGATTTATTAAAACTGGCGATATTGGTTATTTCAACAAA
GAAGGAATGTTGTTTGTTATTGATAGAAAAAAAGATATTTTAAAATATAAAGGACATCAA
ATAAATCCTTCAGAAATTGAAAATGTTATTCAAGAAATCGAAGGAGTTGAGCAAGTTTCT
GTTGTTGGAATTCCAAATGATTTCTGTAACAACCTTTTAATTGCAGCAATCGTGAAGAAA
CACGGATATGAAAGTCTTACTGAAGACGAAATTATGAAGCATGTTGCACGTAGACTACCT
GAATATAAATATCTTCATGGTGGTGTTTACTTCTTTGATAAATTACCAATGACTCCATCA
TGTAAAGTTCAAAAACGATTTGTAATTGAGAGTATACAAAACATCAAGGAAAATTCTTAA
>g9818.t1 Gene=g9818 Length=539
MQSKFNSNTKIWHGPSYTHPFPMDYMLSDYIYEKLCSDSENIVQINADDDSKLKAKELKL
MSIRVAQNLVKIGVKEDDVVGMITHQSHFTTSFILGCVFMGALPNPLDENLSESDIRIIY
KQTKPKIIICDDKAIYKLESALENVDFEFVIYSTSREHEKYQSTKIFLNPTNVEENFMMP
KFSKPSDEKLVCILCSSGTTGTSKGVTITHASYFLWLALTPNSKASVSLCFSPIYWGSGF
FRNITAPLSSTNLRIFTKKPFDVSTFISIVEHYKVTNVNMPPSSLAVLLNSEEFLSSNTK
SLQVFTILGSIVSKVLREKFSKIFPDKMMMVPYGMTEVLISMTKPNEYKQEYAVGSFLFF
NVQVKIIDENGISLDNGKHGEICAKSSFKFHGYYNNAEATSIAFDNEGFIKTGDIGYFNK
EGMLFVIDRKKDILKYKGHQINPSEIENVIQEIEGVEQVSVVGIPNDFCNNLLIAAIVKK
HGYESLTEDEIMKHVARRLPEYKYLHGGVYFFDKLPMTPSCKVQKRFVIESIQNIKENS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9818.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 10 | 432 | 1.3E-80 |
| 8 | g9818.t1 | Gene3D | G3DSA:3.30.300.30 | - | 433 | 536 | 1.3E-24 |
| 3 | g9818.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 4 | 536 | 2.3E-131 |
| 4 | g9818.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 4 | 536 | 2.3E-131 |
| 2 | g9818.t1 | Pfam | PF00501 | AMP-binding enzyme | 46 | 436 | 1.6E-66 |
| 1 | g9818.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 445 | 522 | 2.5E-12 |
| 6 | g9818.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 193 | 204 | - |
| 5 | g9818.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 26 | 534 | 1.7E-98 |
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.
