General information for g9817.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 g9817 is located on chr_1: 5377525..5379222 (+ 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 | g9817 | g9817.t1 | TSS | g9817.t1 | 5377479 | 5377479 |
| chr_1 | g9817 | g9817.t1 | isoform | g9817.t1 | 5377525 | 5379222 |
| chr_1 | g9817 | g9817.t1 | exon | g9817.t1.exon1 | 5377525 | 5378709 |
| chr_1 | g9817 | g9817.t1 | cds | g9817.t1.CDS1 | 5377525 | 5378709 |
| chr_1 | g9817 | g9817.t1 | exon | g9817.t1.exon2 | 5378788 | 5379222 |
| chr_1 | g9817 | g9817.t1 | cds | g9817.t1.CDS2 | 5378788 | 5379222 |
| chr_1 | g9817 | g9817.t1 | TTS | g9817.t1 | 5379303 | 5379303 |
Sequences
>g9817.t1 Gene=g9817 Length=1620
ATGGCAAAGTTTAATACGAAAACAAAAATTTGGGAAGCTGAAAAAATTCCATATCCATAT
TCAATGGATGTATATCTTGGTGAAATAATTCTCAAGAATTGTGATGAAACTCCTGATCGT
GTAATTCAAATTCATCACGAAGAAAATTCTTTTCTAAATTGTCAACTATTAAAAGAATCG
AGTATTAAAATTGCGCAAAACTTAATTGGAATTGGAATCAAAGAAGACGACATAATTGGA
GTAATTTCTAGAAATTCAAATTATGTAACTTGTTTTCTCACTGGTTCAATTTTAATGGGT
GGAATCATTCATCCATTAGATCACAGTTTGTCAACAGAAAACATCCGTCAACTCTATGCA
CACACAAGACCAAAATTGATAATTTGTGACCCCGAGGTGATTTCGTCAGTTCAAGATGCT
CTCAAAGATATTAATTTATCACCATTAATCTACATTGTGACAAAAAATAGTAATAAACTT
AATGGAATGCCAAGTGCTTATGAATTACTCCGTGAAACTGATAAAAATAACAAATTTATG
CCCTTAAAATTCAAAAAACCAGCTGATGAGAAGCTTTTGGCAATTTTATGTTCTAGTGGA
ATAGGAGGTTTACAAAAAGGTGTTTGCATTAGTCATGCTTCATGTTTAAGTTTTATTATC
AACGATAAACATAAGAATAAAACACCAGCAAAACCTTTGTCATTCAGCTCAATTTATTGG
AGCAGAGGATTTTTGCTTAATATTTATGCTTCATTCTATCCAAATGATGTTAGAATTTGG
AGTCGTGATGATTTTAATGTCGATAAATTGGTCGAAATTATCAGAGATAGACAAATAACT
GAAATAAGTCTTGCTCCATCATCACTCGCAGCCATTCTTGAATCAGACTTTTTTATTGAG
TCTGATCATGAAAGCTGTAGAAAATTTATTGTTCTCGGTTCAATGTTCTCTGCATCATTG
AGACAAAAATTTAGAAAAACCTTTCCCGAAAAAACTCTTTTGACTGGCTATGGGTTGACT
GAGCAGTTCATTTCACTTTCAAAGCCTAATGAGTGCTATAATGGAATCACAGTTGGATCA
TTGATTACACCAAATCTACAGCTTAAGATTGTCAATGAAAAAGGTGAAAGTGTTAATCCA
GGAGAGCGTGGCGAAATACGAGTGAAACCGCAATTTAAATTTCTAGGTTATTACAACGAT
CCGGAAGCAACAAAAAATGTACTTGATGAAGATGGTTTCATTAAAACTGGTGATATCGGC
TATTTTGATGATGAAGGCGGACTATATATTGTTGATCGCATTAAAGAAGTTTTCAAATAT
AAAAATTATGCAGTTTTTCCAGCAGAAATTGAAGATGTTTTACATCAAATTGATGGTATT
GAATTAGCATGTGTAATTCCCATATTTTGTGATAAACTTGGAACAGACTTAGCAACTGCA
TACGTGAAGAAAGCTGGAAATGCAACGGAACTGACTGAGAACTACATAATGAATTACATT
TCAGCTGAATTGCCTCTATTGAAACAGTTACATGGCGGAGTCTACTTTGTGAATGATTTG
CCTCTTACACCAGACGGCAAGGTTCACAAGAGCGCAGTTAAACAACTTATAATGAAGTAA
>g9817.t1 Gene=g9817 Length=539
MAKFNTKTKIWEAEKIPYPYSMDVYLGEIILKNCDETPDRVIQIHHEENSFLNCQLLKES
SIKIAQNLIGIGIKEDDIIGVISRNSNYVTCFLTGSILMGGIIHPLDHSLSTENIRQLYA
HTRPKLIICDPEVISSVQDALKDINLSPLIYIVTKNSNKLNGMPSAYELLRETDKNNKFM
PLKFKKPADEKLLAILCSSGIGGLQKGVCISHASCLSFIINDKHKNKTPAKPLSFSSIYW
SRGFLLNIYASFYPNDVRIWSRDDFNVDKLVEIIRDRQITEISLAPSSLAAILESDFFIE
SDHESCRKFIVLGSMFSASLRQKFRKTFPEKTLLTGYGLTEQFISLSKPNECYNGITVGS
LITPNLQLKIVNEKGESVNPGERGEIRVKPQFKFLGYYNDPEATKNVLDEDGFIKTGDIG
YFDDEGGLYIVDRIKEVFKYKNYAVFPAEIEDVLHQIDGIELACVIPIFCDKLGTDLATA
YVKKAGNATELTENYIMNYISAELPLLKQLHGGVYFVNDLPLTPDGKVHKSAVKQLIMK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9817.t1 | Gene3D | G3DSA:3.40.50.12780 | - | 8 | 436 | 0 |
| 6 | g9817.t1 | Gene3D | G3DSA:3.30.300.30 | - | 437 | 539 | 0 |
| 2 | g9817.t1 | PANTHER | PTHR24096:SF353 | GH16244P-RELATED | 3 | 539 | 0 |
| 3 | g9817.t1 | PANTHER | PTHR24096 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 3 | 539 | 0 |
| 1 | g9817.t1 | Pfam | PF00501 | AMP-binding enzyme | 32 | 440 | 0 |
| 4 | g9817.t1 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 10 | 537 | 0 |
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.
