General information for g13092.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Argininosuccinate synthase.
Parent gene
- The parent gene g13092 is located on chr_1: 27920798..27921607 (+ 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 | g13092 | g13092.t2 | TSS | g13092.t2 | 27919610 | 27919610 |
| chr_1 | g13092 | g13092.t2 | isoform | g13092.t2 | 27919647 | 27921298 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon1 | 27919647 | 27919799 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS1 | 27919647 | 27919799 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon2 | 27919871 | 27920030 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS2 | 27919871 | 27920030 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon3 | 27920115 | 27920224 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS3 | 27920115 | 27920224 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon4 | 27920345 | 27920699 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS4 | 27920345 | 27920699 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon5 | 27920790 | 27920873 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS5 | 27920790 | 27920873 |
| chr_1 | g13092 | g13092.t2 | exon | g13092.t2.exon6 | 27921270 | 27921298 |
| chr_1 | g13092 | g13092.t2 | cds | g13092.t2.CDS6 | 27921270 | 27921298 |
| chr_1 | g13092 | g13092.t2 | TTS | g13092.t2 | 27921600 | 27921600 |
Sequences
>g13092.t2 Gene=g13092 Length=891
ATGGAAAAGGAGAATAAAAAAGTTTTGCTGGCATATTCAGGTGGATTGGATACTAGTTGC
ATACTAAAATGGCTTCTCGAAAAAGGCTATGAGGTAATTTGTTTCATGGCAGACGTTGGA
CAAGATGAAGATTTTCAGCAAGCACGAGATAAAGCACTTAAAATTGGTGCAAGTGATTGT
GTTGTCAAGGATGTTAAATTTCACTTCGTTGAAAATTTTGTTTGGCCAGCCATAAAAATG
GGACTGATTTACGAGAAGCGATATTTAATGGGAACTTCATTGGCTAGGCCTTGCATTACA
TTGGCTTTGATAGAGACTGCAAAAGAGCATAATTGTGCATACATTTCTCATGGTGCTACT
GGAAAAGGCAACGATCAAATACGTTTTGAATTATCTGCCTATGCTTTGAATCCCGCTATT
AAGGTCATTGCTGTTTGGCGATTGCCAGAATTTTGCGAGAGATTCCAAGGGCGAAACGAT
TTGCTCGAATATGCAAAAGAAAATTCAATTCCTGTAGCTGCTACTTTGAAGAAACCGTGG
AGTATGGATGCAAATATCATGCATATAAGCTATGAATCGGGAATTCTAGAAGATCCCTCA
CAATCAGCACCTGATGATCTTTACACTATGACCAAAAATCCTCAACATGCACCCAACAAT
CCAACTCGAATTGACATTGTTTTCAATCACGGCATACCTGTGCGTTGCACTAACTTGACA
ACGGGAAATACTTATGAAATTCCGACACATATTCTGCAATATTTGAATCAAATTGGTGGT
GAACACGGAATCGGACGCGTAGATCTAGTTGAAAATCGATTTGTTGGTCTAAAGTCACGT
GGCATATATGAAACTCCTGGCTGTAAATTTTCACGTGTCAAATTAAATTGA
>g13092.t2 Gene=g13092 Length=296
MEKENKKVLLAYSGGLDTSCILKWLLEKGYEVICFMADVGQDEDFQQARDKALKIGASDC
VVKDVKFHFVENFVWPAIKMGLIYEKRYLMGTSLARPCITLALIETAKEHNCAYISHGAT
GKGNDQIRFELSAYALNPAIKVIAVWRLPEFCERFQGRNDLLEYAKENSIPVAATLKKPW
SMDANIMHISYESGILEDPSQSAPDDLYTMTKNPQHAPNNPTRIDIVFNHGIPVRCTNLT
TGNTYEIPTHILQYLNQIGGEHGIGRVDLVENRFVGLKSRGIYETPGCKFSRVKLN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13092.t2 | Gene3D | G3DSA:3.40.50.620 | HUPs | 1 | 180 | 2.4E-69 |
| 9 | g13092.t2 | Gene3D | G3DSA:3.90.1260.10 | Argininosuccinate synthetase | 181 | 292 | 1.3E-43 |
| 2 | g13092.t2 | PANTHER | PTHR11587 | ARGININOSUCCINATE SYNTHASE | 4 | 288 | 5.0E-132 |
| 3 | g13092.t2 | PANTHER | PTHR11587:SF2 | ARGININOSUCCINATE SYNTHASE | 4 | 288 | 5.0E-132 |
| 1 | g13092.t2 | Pfam | PF00764 | Arginosuccinate synthase | 10 | 288 | 8.0E-107 |
| 7 | g13092.t2 | ProSitePatterns | PS00564 | Argininosuccinate synthase signature 1. | 11 | 19 | - |
| 6 | g13092.t2 | ProSitePatterns | PS00565 | Argininosuccinate synthase signature 2. | 118 | 129 | - |
| 5 | g13092.t2 | SUPERFAMILY | SSF52402 | Adenine nucleotide alpha hydrolases-like | 3 | 176 | 7.28E-46 |
| 4 | g13092.t2 | SUPERFAMILY | SSF69864 | Argininosuccinate synthetase, C-terminal domain | 177 | 288 | 5.62E-41 |
| 10 | g13092.t2 | TIGRFAM | TIGR00032 | argG: argininosuccinate synthase | 7 | 288 | 2.1E-98 |
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