Gene loci information

Transcript annotation

  • This transcript has been annotated as Arginase-1.

Parent gene

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.t4 TSS g9339.t4 1917570 1917570
chr_1 g9339 g9339.t4 isoform g9339.t4 1917615 1918910
chr_1 g9339 g9339.t4 exon g9339.t4.exon1 1917615 1917717
chr_1 g9339 g9339.t4 cds g9339.t4.CDS1 1917615 1917717
chr_1 g9339 g9339.t4 exon g9339.t4.exon2 1917862 1918236
chr_1 g9339 g9339.t4 cds g9339.t4.CDS2 1917862 1918236
chr_1 g9339 g9339.t4 exon g9339.t4.exon3 1918405 1918910
chr_1 g9339 g9339.t4 cds g9339.t4.CDS3 1918405 1918910
chr_1 g9339 g9339.t4 TTS g9339.t4 1919041 1919041

Sequences

>g9339.t4 Gene=g9339 Length=984
ATGTGGTCTTTAAATGCGTTTAAGAATTTCTCATCAAAATTGCATCAAATTAGATGTTTA
AATACACAGAAAATTGGAATAATTGGTGTACCATTTGATAAAGGTGCGAGTAAGCGTGGA
GCAGACAAAGGCCCAAAAGCTTTAAGAGAATCGGGACTAATTGATGAGATTAAGCAGATC
TCGTCGAATATTGATGTGAAAGATTACGGCGATGTTCATTATGAATTAATGAGCTCTAAT
GGAAGGAAAATTCACAATCTAAATGAGTTGAATCATGTTGCTGCATGCAATCGAGCGTTG
GCTGAGCGAATAGAGGAGATTTTAAATGATGAACGAATGCCAATCACCTTAGGCGGTTGT
CATAGCATTGCAATTGGTTCAATTAGCGGTGTTGTGCGAAAGACAGCGCCAGATAATATG
TGTGTTTTGTGGATTGATGCACATCTCGATCTCAATACGAACACAACATCCCCAACGGCA
AGTTTAATAGTCAAAGAATTGCGCTCAAATTGGCCTTTTGTGCCAGAACTCGAATGGTGC
AAGGCAGAATTGTCATTGAAAAATTTTTGCTGGATTGGACTACGTTCGATTGATTACTAT
GAACGATTGAGCATGGAAAAGTATGGAATTAAGTACTTTGACATGCGCGACATCGATAAG
ATGGGAATTGACAAGGTAACTAATGCGGCAATCAAGCACATTAATCCGAATGGAGACAAA
AAGCTGCATGTAAGCTTTGACATTGATGCACTTGATCCATTATTTGCAAATGCTACAGGT
ACTCCTGTCGGCGGTGGTTTGACTCTTCGTGAGGGAATTTTTCTAATGGAAGAAGTCTAT
AAAAGTGGAACTCTTAGATCAATGGACTTGGTTGAAGTAAATCCACAACTTGGTGACGCT
CGTGATGTTACAAACACAATTAACTCAGCAAAGGCAATTTTGTATGCCGCACTGGGCAAC
AATCGGAGCGGAAACACTTCGTGA

>g9339.t4 Gene=g9339 Length=327
MWSLNAFKNFSSKLHQIRCLNTQKIGIIGVPFDKGASKRGADKGPKALRESGLIDEIKQI
SSNIDVKDYGDVHYELMSSNGRKIHNLNELNHVAACNRALAERIEEILNDERMPITLGGC
HSIAIGSISGVVRKTAPDNMCVLWIDAHLDLNTNTTSPTASLIVKELRSNWPFVPELEWC
KAELSLKNFCWIGLRSIDYYERLSMEKYGIKYFDMRDIDKMGIDKVTNAAIKHINPNGDK
KLHVSFDIDALDPLFANATGTPVGGGLTLREGIFLMEEVYKSGTLRSMDLVEVNPQLGDA
RDVTNTINSAKAILYAALGNNRSGNTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g9339.t4 CDD cd09989 Arginase 25 314 0.000
9 g9339.t4 Gene3D G3DSA:3.40.800.10 - 20 327 0.000
2 g9339.t4 PANTHER PTHR43782 ARGINASE 20 325 0.000
10 g9339.t4 PIRSF PIRSF036979 Arginase 4 320 0.000
7 g9339.t4 PRINTS PR00116 Arginase signature 117 132 0.000
5 g9339.t4 PRINTS PR00116 Arginase signature 142 169 0.000
4 g9339.t4 PRINTS PR00116 Arginase signature 192 210 0.000
6 g9339.t4 PRINTS PR00116 Arginase signature 242 271 0.000
3 g9339.t4 PRINTS PR00116 Arginase signature 277 291 0.000
1 g9339.t4 Pfam PF00491 Arginase family 24 316 0.000
13 g9339.t4 ProSiteProfiles PS51409 Arginase family profile. 13 325 51.363
8 g9339.t4 SUPERFAMILY SSF52768 Arginase/deacetylase 24 310 0.000
12 g9339.t4 TIGRFAM TIGR01229 rocF_arginase: arginase 27 321 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:0006525 arginine metabolic process BP
GO:0046872 metal ion binding MF
GO:0004053 arginase activity 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.

Raw TPM values