General information for g9339.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TSS | g9339.t1 | 1917570 | 1917570 |
| chr_1 | g9339 | g9339.t1 | isoform | g9339.t1 | 1917615 | 1918910 |
| chr_1 | g9339 | g9339.t1 | exon | g9339.t1.exon1 | 1917615 | 1917717 |
| chr_1 | g9339 | g9339.t1 | cds | g9339.t1.CDS1 | 1917615 | 1917717 |
| chr_1 | g9339 | g9339.t1 | exon | g9339.t1.exon2 | 1917862 | 1918236 |
| chr_1 | g9339 | g9339.t1 | cds | g9339.t1.CDS2 | 1917862 | 1918236 |
| chr_1 | g9339 | g9339.t1 | exon | g9339.t1.exon3 | 1918384 | 1918910 |
| chr_1 | g9339 | g9339.t1 | cds | g9339.t1.CDS3 | 1918384 | 1918910 |
| chr_1 | g9339 | g9339.t1 | TTS | g9339.t1 | 1919041 | 1919041 |
Sequences
>g9339.t1 Gene=g9339 Length=1005
ATGTGGTCTTTAAATGCGTTTAAGAATTTCTCATCAAAATTGCATCAAATTAGATGTTTA
AATACACAGAAAATTGGAATAATTGGTGTACCATTTGATAAAGGTGCGAGTAAGCGTGGA
GCAGACAAAGGCCCAAAAGCTTTAAGAGAATCGGGACTAATTGATGAGATTAAGCAGATC
TCGTCGAATATTGATGTGAAAGATTACGGCGATGTTCATTATGAATTAATGAGCTCTAAT
GGAAGGAAAATTCACAATCTAAATGAGTTGAATCATGTTGCTGCATGCAATCGAGCGTTG
GCTGAGCGAATAGAGGAGATTTTAAATGATGAACGAATGCCAATCACCTTAGGCGGTTGT
CATAGCATTGCAATTGGTTCAATTAGCGGTGTTGTGCGAAAGACAGCGCCAGATAATATG
TGTGTTTTGTGGATTGATGCACATCTCGATCTCAATACGAACACAACATCCCCAACGGGT
AACATGCATGGCATGCCAGCAAGTTTAATAGTCAAAGAATTGCGCTCAAATTGGCCTTTT
GTGCCAGAACTCGAATGGTGCAAGGCAGAATTGTCATTGAAAAATTTTTGCTGGATTGGA
CTACGTTCGATTGATTACTATGAACGATTGAGCATGGAAAAGTATGGAATTAAGTACTTT
GACATGCGCGACATCGATAAGATGGGAATTGACAAGGTAACTAATGCGGCAATCAAGCAC
ATTAATCCGAATGGAGACAAAAAGCTGCATGTAAGCTTTGACATTGATGCACTTGATCCA
TTATTTGCAAATGCTACAGGTACTCCTGTCGGCGGTGGTTTGACTCTTCGTGAGGGAATT
TTTCTAATGGAAGAAGTCTATAAAAGTGGAACTCTTAGATCAATGGACTTGGTTGAAGTA
AATCCACAACTTGGTGACGCTCGTGATGTTACAAACACAATTAACTCAGCAAAGGCAATT
TTGTATGCCGCACTGGGCAACAATCGGAGCGGAAACACTTCGTGA
>g9339.t1 Gene=g9339 Length=334
MWSLNAFKNFSSKLHQIRCLNTQKIGIIGVPFDKGASKRGADKGPKALRESGLIDEIKQI
SSNIDVKDYGDVHYELMSSNGRKIHNLNELNHVAACNRALAERIEEILNDERMPITLGGC
HSIAIGSISGVVRKTAPDNMCVLWIDAHLDLNTNTTSPTGNMHGMPASLIVKELRSNWPF
VPELEWCKAELSLKNFCWIGLRSIDYYERLSMEKYGIKYFDMRDIDKMGIDKVTNAAIKH
INPNGDKKLHVSFDIDALDPLFANATGTPVGGGLTLREGIFLMEEVYKSGTLRSMDLVEV
NPQLGDARDVTNTINSAKAILYAALGNNRSGNTS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g9339.t1 | CDD | cd09989 | Arginase | 25 | 321 | 0.00 |
| 9 | g9339.t1 | Gene3D | G3DSA:3.40.800.10 | - | 20 | 334 | 0.00 |
| 2 | g9339.t1 | PANTHER | PTHR43782 | ARGINASE | 20 | 332 | 0.00 |
| 10 | g9339.t1 | PIRSF | PIRSF036979 | Arginase | 4 | 327 | 0.00 |
| 6 | g9339.t1 | PRINTS | PR00116 | Arginase signature | 117 | 132 | 0.00 |
| 4 | g9339.t1 | PRINTS | PR00116 | Arginase signature | 142 | 169 | 0.00 |
| 7 | g9339.t1 | PRINTS | PR00116 | Arginase signature | 199 | 217 | 0.00 |
| 3 | g9339.t1 | PRINTS | PR00116 | Arginase signature | 249 | 278 | 0.00 |
| 5 | g9339.t1 | PRINTS | PR00116 | Arginase signature | 284 | 298 | 0.00 |
| 1 | g9339.t1 | Pfam | PF00491 | Arginase family | 24 | 323 | 0.00 |
| 13 | g9339.t1 | ProSiteProfiles | PS51409 | Arginase family profile. | 13 | 332 | 53.77 |
| 8 | g9339.t1 | SUPERFAMILY | SSF52768 | Arginase/deacetylase | 24 | 317 | 0.00 |
| 12 | g9339.t1 | TIGRFAM | TIGR01229 | rocF_arginase: arginase | 27 | 328 | 0.00 |
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:0006525 | arginine metabolic process | BP |
| GO:0046872 | metal ion binding | MF |
| GO:0004053 | arginase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01476 (arginase)
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.
