General information for g9339.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Arginase-1.
Parent gene
- The parent gene g9339 is located on chr_1: 1918357..1918910 (+ 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 | g9339 | g9339.t3 | TSS | g9339.t3 | 1917570 | 1917570 |
| chr_1 | g9339 | g9339.t3 | isoform | g9339.t3 | 1917615 | 1918910 |
| chr_1 | g9339 | g9339.t3 | exon | g9339.t3.exon1 | 1917615 | 1917717 |
| chr_1 | g9339 | g9339.t3 | cds | g9339.t3.CDS1 | 1917615 | 1917717 |
| chr_1 | g9339 | g9339.t3 | exon | g9339.t3.exon2 | 1917862 | 1918601 |
| chr_1 | g9339 | g9339.t3 | cds | g9339.t3.CDS2 | 1917862 | 1918277 |
| chr_1 | g9339 | g9339.t3 | exon | g9339.t3.exon3 | 1918705 | 1918910 |
| chr_1 | g9339 | g9339.t3 | TTS | g9339.t3 | 1919041 | 1919041 |
Sequences
>g9339.t3 Gene=g9339 Length=1049
ATGTGGTCTTTAAATGCGTTTAAGAATTTCTCATCAAAATTGCATCAAATTAGATGTTTA
AATACACAGAAAATTGGAATAATTGGTGTACCATTTGATAAAGGTGCGAGTAAGCGTGGA
GCAGACAAAGGCCCAAAAGCTTTAAGAGAATCGGGACTAATTGATGAGATTAAGCAGATC
TCGTCGAATATTGATGTGAAAGATTACGGCGATGTTCATTATGAATTAATGAGCTCTAAT
GGAAGGAAAATTCACAATCTAAATGAGTTGAATCATGTTGCTGCATGCAATCGAGCGTTG
GCTGAGCGAATAGAGGAGATTTTAAATGATGAACGAATGCCAATCACCTTAGGCGGTTGT
CATAGCATTGCAATTGGTTCAATTAGCGGTGTTGTGCGAAAGACAGCGCCAGATAATATG
TGTGTTTTGTGGATTGATGCACATCTCGATCTCAATACGAACACAACATCCCCAACGGGT
AATGAGAAATTTCAATATAAAAATAGCATGAATTTTTAAAGGAATGGAAACTTGATGATT
TTATAAAAAGTATTCAAAGTTTCCATTCCCTTAAAATTCATGCATTGCTTTGAAAAACTA
AAAATAACTTTCATCTCTATTTTAGGTAACATGCATGGCATGCCAGCAAGTTTAATAGTC
AAAGAATTGCGCTCAAATTGGCCTTTTGTGCCAGAACTCGAATGGTGCAAGGCAGAATTG
TCATTGAAAAATTTTTGCTGGATTGGACTACGTTCGATTGATTACTATGAACGATTGAGC
ATGGAAAAGTATGGAATTAAGTACTTTGACATGCGCGACATCGATAAGATGGGAATTGAC
AAGGTACTCCTGTCGGCGGTGGTTTGACTCTTCGTGAGGGAATTTTTCTAATGGAAGAAG
TCTATAAAAGTGGAACTCTTAGATCAATGGACTTGGTTGAAGTAAATCCACAACTTGGTG
ACGCTCGTGATGTTACAAACACAATTAACTCAGCAAAGGCAATTTTGTATGCCGCACTGG
GCAACAATCGGAGCGGAAACACTTCGTGA
>g9339.t3 Gene=g9339 Length=172
MWSLNAFKNFSSKLHQIRCLNTQKIGIIGVPFDKGASKRGADKGPKALRESGLIDEIKQI
SSNIDVKDYGDVHYELMSSNGRKIHNLNELNHVAACNRALAERIEEILNDERMPITLGGC
HSIAIGSISGVVRKTAPDNMCVLWIDAHLDLNTNTTSPTGNEKFQYKNSMNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9339.t3 | Gene3D | G3DSA:3.40.800.10 | - | 19 | 166 | 0.000 |
| 2 | g9339.t3 | PANTHER | PTHR43782 | ARGINASE | 20 | 161 | 0.000 |
| 4 | g9339.t3 | PRINTS | PR00116 | Arginase signature | 117 | 132 | 0.000 |
| 3 | g9339.t3 | PRINTS | PR00116 | Arginase signature | 142 | 169 | 0.000 |
| 1 | g9339.t3 | Pfam | PF00491 | Arginase family | 24 | 162 | 0.000 |
| 7 | g9339.t3 | ProSiteProfiles | PS51409 | Arginase family profile. | 13 | 172 | 27.781 |
| 5 | g9339.t3 | SUPERFAMILY | SSF52768 | Arginase/deacetylase | 24 | 161 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0046872 | metal ion binding | MF |
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. There were no conditions that were differentially expressed