General information for g9819.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 4-coumarate–CoA ligase-like 5.
Parent gene
- The parent gene g9819 is located on chr_1: 5381446..5383139 (+ 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 | g9819 | g9819.t1 | TSS | g9819.t1 | 5381408 | 5381408 |
| chr_1 | g9819 | g9819.t1 | isoform | g9819.t1 | 5381446 | 5383139 |
| chr_1 | g9819 | g9819.t1 | exon | g9819.t1.exon1 | 5381446 | 5382057 |
| chr_1 | g9819 | g9819.t1 | cds | g9819.t1.CDS1 | 5381446 | 5382057 |
| chr_1 | g9819 | g9819.t1 | exon | g9819.t1.exon2 | 5382108 | 5383139 |
| chr_1 | g9819 | g9819.t1 | cds | g9819.t1.CDS2 | 5382108 | 5383139 |
| chr_1 | g9819 | g9819.t1 | TTS | g9819.t1 | NA | NA |
Sequences
>g9819.t1 Gene=g9819 Length=1644
ATGGAAGCAAGTTTTAATTCTGAACTTAAAATTTGGAGAGGTCCAAAAATTCCTTATCCC
TTTTCAATGGATACAATGATAAGCGATTTAGTTTTGGAAAATTTATCAAAAACTCCTGAG
CGAATTTTGCAAATTACAAGGTCTGATGATAAAGCAATTACTTGCAATGAATTTAAAATT
TCAATGATTCGTGTCGCTCAAAATCTTGCGAAAATCGGCATAAAGGAGGAAGATGTTGTT
GGAATAATTGCCAGGCAATCACATTTGGCTTCTTATATAATAAACGGTTGTATAGCATTA
GGTGCTCTTATTAACCCTTTACATGCGGCAATGAATGAAACTGATATATGTGGAATTTTC
ACTCAGACAAGACCAAAAATTATCATCTGTGAGTTTGATATTATTCCAAAAGTTCAATGG
GCTCTGAAAAATGTTGATTTTTCTTATCAAATTTATTCAATGTCTAATGAAAATTCAGAA
CTTTTAAAAGCAGAAGACTTTTTGAAACCAACTGATAATGAAGATAATTTTAAATTACCA
AGATTCAAAAAACCTGCGAATGAAAAGATTTTTGCAATTTTATGTTCTTCTGGAACGACA
GGAATGAGTAAAGGCGTTTGTTTCTCACACTCTTCAGTGCTCTCATTGATATCAGAATTT
CCGAAAACAACATATACTACAGTATCTTACACTACAAGTCCGATTTATTGGGCTACTGGA
TTTTTTCCTAATATAACGTCAGTTTTATTACAAAATGAATTGCGTATCGTATATGAAGAT
AAGCAAGTTGAAATCCGAGAAATCTTTGAAGATATTGAAAAATATGGAATTACATCTGCA
TCAATAACACCAACGCTTTTGGCTTTAATTTTGCAAGACGAAAATATTCATAAGTATAAT
TTAAAGAGTCTTCAAAGTGTTACATCTGGAGGCTCAATTGTTTCAAAAACATTACGAGAG
AAATTTGCTGAAATATTTCCAGACAAAGTGATGATGGTTCCTTATGGATTGACTGAAATT
TTTGTTTCAATGACAAAACCAAATGAGTATAAGCAAGAATATGCTGTTGGTTCTTTATTA
TCTCCGCATAGTGAAGTTAAAGTTGTTGATGATGATGGAAATAGACTTGGAATTGGTGAA
AGAGGAGAAATTTTGATTAAAACTCCGTATAGGTTTGTAAAATATTACAACAATGCAGAA
GCAACATCAATTGCATTTGATAATGAAGGATTTATTAAAACTGGCGATATTGGATATTTC
AACAAAGAAGGAATATTGTTTGTTATCGATAGAAAGAAAGATATTTTAAAATATAAAGGA
CATCAAATAAATCCTTCAGAAATTGAAAATGTTATTCAAAAAATAGAAGGAGTTAACCAA
GTTTCTGTTGTTGGAATTCCAAATGATTTCGTTGGAAATTTCATTACTGCAGCAATCGTG
AAGAAACACGGATATGAAAGTCTTACTGAAGACGAAATTATCAAGCATGTTGCAAGTAGA
CTACCTGAATATAAACATCTTCATGGTGGTGTTTACTTCTTTGATGAATTACCAATGACT
CCTTCTGGTAAAATTCAGAAGCGATTTGTAATTGAAAATATTTTAAAAATTATGCAAACA
TTTTCTTTTAATAATAAAATGTGA
>g9819.t1 Gene=g9819 Length=547
MEASFNSELKIWRGPKIPYPFSMDTMISDLVLENLSKTPERILQITRSDDKAITCNEFKI
SMIRVAQNLAKIGIKEEDVVGIIARQSHLASYIINGCIALGALINPLHAAMNETDICGIF
TQTRPKIIICEFDIIPKVQWALKNVDFSYQIYSMSNENSELLKAEDFLKPTDNEDNFKLP
RFKKPANEKIFAILCSSGTTGMSKGVCFSHSSVLSLISEFPKTTYTTVSYTTSPIYWATG
FFPNITSVLLQNELRIVYEDKQVEIREIFEDIEKYGITSASITPTLLALILQDENIHKYN
LKSLQSVTSGGSIVSKTLREKFAEIFPDKVMMVPYGLTEIFVSMTKPNEYKQEYAVGSLL
SPHSEVKVVDDDGNRLGIGERGEILIKTPYRFVKYYNNAEATSIAFDNEGFIKTGDIGYF
NKEGILFVIDRKKDILKYKGHQINPSEIENVIQKIEGVNQVSVVGIPNDFVGNFITAAIV
KKHGYESLTEDEIIKHVASRLPEYKHLHGGVYFFDELPMTPSGKIQKRFVIENILKIMQT
FSFNNKM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g9819.t1 | Coils | Coil | Coil | 547 | 547 | - |
| 7 | g9819.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 11 | 434 | 4.4E-87 |
| 8 | g9819.t1 | Gene3D | G3DSA:3.30.300.30 | - | 435 | 536 | 6.0E-26 |
| 3 | g9819.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 5 | 537 | 4.0E-138 |
| 4 | g9819.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 5 | 537 | 4.0E-138 |
| 2 | g9819.t1 | Pfam | PF00501 | AMP-binding enzyme | 34 | 438 | 1.0E-68 |
| 1 | g9819.t1 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 447 | 524 | 7.0E-15 |
| 6 | g9819.t1 | ProSitePatterns | PS00455 | Putative AMP-binding domain signature. | 193 | 204 | - |
| 5 | g9819.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 10 | 533 | 2.62E-104 |
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.
