Gene loci information

Transcript annotation

  • This transcript has been annotated as Argininosuccinate synthase.

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 g13092 g13092.t3 TSS g13092.t3 27919610 27919610
chr_1 g13092 g13092.t3 isoform g13092.t3 27919647 27921298
chr_1 g13092 g13092.t3 exon g13092.t3.exon1 27919647 27919799
chr_1 g13092 g13092.t3 exon g13092.t3.exon2 27919871 27919960
chr_1 g13092 g13092.t3 exon g13092.t3.exon3 27920529 27920699
chr_1 g13092 g13092.t3 cds g13092.t3.CDS1 27920549 27920699
chr_1 g13092 g13092.t3 exon g13092.t3.exon4 27920790 27921298
chr_1 g13092 g13092.t3 cds g13092.t3.CDS2 27920790 27921298
chr_1 g13092 g13092.t3 TTS g13092.t3 27921600 27921600

Sequences

>g13092.t3 Gene=g13092 Length=923
ATGGAAAAGGAGAATAAAAAAGTTTTGCTGGCATATTCAGGTGGATTGGATACTAGTTGC
ATACTAAAATGGCTTCTCGAAAAAGGCTATGAGGTAATTTGTTTCATGGCAGACGTTGGA
CAAGATGAAGATTTTCAGCAAGCACGAGATAAAGCACTTAAAATTGGTGCAAGTGATTGT
GTTGTCAAGGATGTTAAATTTCACTTCGTTGAAAATTTTGTTTGGCCAGCCATAAAAATG
GGACACCTGATGATCTTTACACTATGACCAAAAATCCTCAACATGCACCCAACAATCCAA
CTCGAATTGACATTGTTTTCAATCACGGCATACCTGTGCGTTGCACTAACTTGACAACGG
GAAATACTTATGAAATTCCGACACATATTCTGCAATATTTGAATCAAATTGGTGGTGAAC
ACGGAATCGGACGCGTAGATCTAGTTGAAAATCGATTTGTTGGTCTAAAGTCACGTGGCA
TATATGAAACTCCTGGCTGTAAAATTCTCTATGAAGCACACCTTGATTTAGAGGTCTATT
GTCTAGATCGAGAAATTTTTCGCGTGAAGAGCTTTTTGGCGGACAAGATGGCTGAATATG
TGTACAATGGATTTTGGTTCTCGCCTGAAGCCGAATATGTTAGAAAATGTTTGGATGAGT
CGCAACGATCTGTTAATGGACGTGTTACAATAGAGCTTTTTAAAGGAAATGTTTCAATTA
TTGGACGTGAATCAATAAGCTCATTGTACAATCAAGAACTAGTTTCAATGAATGTCCATG
GACAGCTCGATTATACTGCTGCAACAGGCTTCATAGAAATCAACGCTATTCGTCTAAAAG
AGCATTATCGTGCATATGGTTCAACTCCAAATAATAATATGCATAGCTTGAATCGTAAAT
TTTCACGTGTCAAATTAAATTGA

>g13092.t3 Gene=g13092 Length=219
MTKNPQHAPNNPTRIDIVFNHGIPVRCTNLTTGNTYEIPTHILQYLNQIGGEHGIGRVDL
VENRFVGLKSRGIYETPGCKILYEAHLDLEVYCLDREIFRVKSFLADKMAEYVYNGFWFS
PEAEYVRKCLDESQRSVNGRVTIELFKGNVSIIGRESISSLYNQELVSMNVHGQLDYTAA
TGFIEINAIRLKEHYRAYGSTPNNNMHSLNRKFSRVKLN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g13092.t3 Gene3D G3DSA:3.90.1260.10 Argininosuccinate synthetase 1 163 0
6 g13092.t3 Gene3D G3DSA:1.20.5.470 Single helix bin 164 199 0
2 g13092.t3 PANTHER PTHR11587 ARGININOSUCCINATE SYNTHASE 2 196 0
3 g13092.t3 PANTHER PTHR11587:SF5 ARGININOSUCCINATE SYNTHASE 2 196 0
1 g13092.t3 Pfam PF00764 Arginosuccinate synthase 1 193 0
4 g13092.t3 SUPERFAMILY SSF69864 Argininosuccinate synthetase, C-terminal domain 1 197 0

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:0005524 ATP binding MF
GO:0004055 argininosuccinate synthase activity MF
GO:0006526 arginine biosynthetic process BP

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