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.t5 TSS g9339.t5 1917570 1917570
chr_1 g9339 g9339.t5 isoform g9339.t5 1917615 1918910
chr_1 g9339 g9339.t5 exon g9339.t5.exon1 1917615 1918236
chr_1 g9339 g9339.t5 cds g9339.t5.CDS1 1917987 1918236
chr_1 g9339 g9339.t5 exon g9339.t5.exon2 1918384 1918910
chr_1 g9339 g9339.t5 cds g9339.t5.CDS2 1918384 1918910
chr_1 g9339 g9339.t5 TTS g9339.t5 1919041 1919041

Sequences

>g9339.t5 Gene=g9339 Length=1149
ATGTGGTCTTTAAATGCGTTTAAGAATTTCTCATCAAAATTGCATCAAATTAGATGTTTA
AATACACAGAAAATTGGAATAATTGGTGTACCATTTGATAAAGGTAAGAGCCCTCTTAAA
AAGCAATTGAAAATTCAAATCAGCTCAATTATCAATGCTGATTCAATCAAGTGAGAAAGA
TCGAAAATTTTCGTGCTCTGAAATGACTAAATAATTTATGAATTTTTTTTTCTATAATAA
TATTTAGGTGCGAGTAAGCGTGGAGCAGACAAAGGCCCAAAAGCTTTAAGAGAATCGGGA
CTAATTGATGAGATTAAGCAGATCTCGTCGAATATTGATGTGAAAGATTACGGCGATGTT
CATTATGAATTAATGAGCTCTAATGGAAGGAAAATTCACAATCTAAATGAGTTGAATCAT
GTTGCTGCATGCAATCGAGCGTTGGCTGAGCGAATAGAGGAGATTTTAAATGATGAACGA
ATGCCAATCACCTTAGGCGGTTGTCATAGCATTGCAATTGGTTCAATTAGCGGTGTTGTG
CGAAAGACAGCGCCAGATAATATGTGTGTTTTGTGGATTGATGCACATCTCGATCTCAAT
ACGAACACAACATCCCCAACGGGTAACATGCATGGCATGCCAGCAAGTTTAATAGTCAAA
GAATTGCGCTCAAATTGGCCTTTTGTGCCAGAACTCGAATGGTGCAAGGCAGAATTGTCA
TTGAAAAATTTTTGCTGGATTGGACTACGTTCGATTGATTACTATGAACGATTGAGCATG
GAAAAGTATGGAATTAAGTACTTTGACATGCGCGACATCGATAAGATGGGAATTGACAAG
GTAACTAATGCGGCAATCAAGCACATTAATCCGAATGGAGACAAAAAGCTGCATGTAAGC
TTTGACATTGATGCACTTGATCCATTATTTGCAAATGCTACAGGTACTCCTGTCGGCGGT
GGTTTGACTCTTCGTGAGGGAATTTTTCTAATGGAAGAAGTCTATAAAAGTGGAACTCTT
AGATCAATGGACTTGGTTGAAGTAAATCCACAACTTGGTGACGCTCGTGATGTTACAAAC
ACAATTAACTCAGCAAAGGCAATTTTGTATGCCGCACTGGGCAACAATCGGAGCGGAAAC
ACTTCGTGA

>g9339.t5 Gene=g9339 Length=258
MSSNGRKIHNLNELNHVAACNRALAERIEEILNDERMPITLGGCHSIAIGSISGVVRKTA
PDNMCVLWIDAHLDLNTNTTSPTGNMHGMPASLIVKELRSNWPFVPELEWCKAELSLKNF
CWIGLRSIDYYERLSMEKYGIKYFDMRDIDKMGIDKVTNAAIKHINPNGDKKLHVSFDID
ALDPLFANATGTPVGGGLTLREGIFLMEEVYKSGTLRSMDLVEVNPQLGDARDVTNTINS
AKAILYAALGNNRSGNTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g9339.t5 CDD cd09989 Arginase 3 245 0.00
9 g9339.t5 Gene3D G3DSA:3.40.800.10 - 2 258 0.00
2 g9339.t5 PANTHER PTHR43782 ARGINASE 5 256 0.00
10 g9339.t5 PIRSF PIRSF036979 Arginase 9 251 0.00
6 g9339.t5 PRINTS PR00116 Arginase signature 41 56 0.00
3 g9339.t5 PRINTS PR00116 Arginase signature 66 93 0.00
5 g9339.t5 PRINTS PR00116 Arginase signature 123 141 0.00
7 g9339.t5 PRINTS PR00116 Arginase signature 173 202 0.00
4 g9339.t5 PRINTS PR00116 Arginase signature 208 222 0.00
1 g9339.t5 Pfam PF00491 Arginase family 18 247 0.00
13 g9339.t5 ProSiteProfiles PS51409 Arginase family profile. 1 256 44.92
8 g9339.t5 SUPERFAMILY SSF52768 Arginase/deacetylase 11 250 0.00
12 g9339.t5 TIGRFAM TIGR01229 rocF_arginase: arginase 7 252 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

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.

Raw TPM values