General information for g6155.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamine synthetase 2 cytoplasmic.
Parent gene
- The parent gene g6155 is located on chr_2: 14599543..14604243 (- 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_2 | g6155 | g6155.t1 | isoform | g6155.t1 | 14599543 | 14602676 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon1 | 14599543 | 14599903 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS1 | 14599543 | 14599903 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon2 | 14600021 | 14600279 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS2 | 14600021 | 14600279 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon3 | 14600346 | 14600527 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS3 | 14600346 | 14600527 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon4 | 14600586 | 14600712 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS4 | 14600586 | 14600712 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon5 | 14602442 | 14602516 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS5 | 14602442 | 14602516 |
| chr_2 | g6155 | g6155.t1 | exon | g6155.t1.exon6 | 14602580 | 14602676 |
| chr_2 | g6155 | g6155.t1 | cds | g6155.t1.CDS6 | 14602580 | 14602676 |
| chr_2 | g6155 | g6155.t1 | TSS | g6155.t1 | NA | NA |
| chr_2 | g6155 | g6155.t1 | TTS | g6155.t1 | NA | NA |
Sequences
>g6155.t1 Gene=g6155 Length=1101
ATGTTGGAAGAATCACCAAATTCAAAGTTGAATAAGGAAATTCTAAGTCGTTACACGACA
TTAGAATTACCTGAAGGACAAATTATTGCCACATATGTTTGGATTGACGGAACTGGAGAA
AATCTTCGCTGCAAAGATAGAACACTGAATTTCATTCCCTCAAACCCAAAAGATTTGCCT
ATCTGGAATTATGACGGATCATCCACATACCAAGCATTAGGAGAAAACTCAGATGTTTAT
TTGTATCCTTGCGCTATCTACAGAGATCCATTCCGTCGTGGAAATCACATTTTAGTTTTA
TGTGAAACTTACAAATATGATGGAACACCAATGAAAACCAACAACCGCAAATCATGCAGT
GAGGTTGCTGAAAAATGCAAAAATGAAGAACCTTGGTTTGGTATTGAACAGGAATATACT
CTTTTGGATATGGACGGACGACCATTAGGCTGGCCAAAAGGTGGCTTCCCTGCACCACAA
GGTCCATACTATTGTGGTGTTGGTGCTGACAAAGTTATTGCTCGAGATGTTGTTGATGCT
CACTATCGTGCTTGTCTTTATGCTGGAATCAAAATTTGCGGAACAAATGCCGAAGTTATG
CCAGCTCAGTGGGAATTCCAGGTTGGACCCTGTGTTGGAGTTTCAATTGGTGACGATTTA
TGGATGGCTCGCTTTTTGTTGCATAGAATTGCTGAAGATTTTGGCATTGTTTGCACAATG
GATCCAAAGCCACAAGTTGGCGATTGGAACGGAGCTGGTGCACATACAAATGTTTCAACA
AAAGCCACACGTGCAGAAGGTGGAATTGAAGCAATCAAAGTTGCTATTGAGAAACTTTCA
AAGAACCATGACGAACACATTCGCGCATATGATCCACATGGGGGCAAAGACAATGAACGT
CGTTTGACAGGCAGACATGAGACATCAAGCATTCATGAATTTAAATCAGGTGTTGCTAAT
CGTGGCGCATCAATTCGCATTCCACGAGGCGTTTCAGATGAAGGCAAGGGCTATTTCGAA
GATCGTCGGCCATCTTCAAACTGCGACCCTTATGCAGTTGCAGAACGCATTCTTCGTACA
ATTTGCCTTAATGAATATTAA
>g6155.t1 Gene=g6155 Length=366
MLEESPNSKLNKEILSRYTTLELPEGQIIATYVWIDGTGENLRCKDRTLNFIPSNPKDLP
IWNYDGSSTYQALGENSDVYLYPCAIYRDPFRRGNHILVLCETYKYDGTPMKTNNRKSCS
EVAEKCKNEEPWFGIEQEYTLLDMDGRPLGWPKGGFPAPQGPYYCGVGADKVIARDVVDA
HYRACLYAGIKICGTNAEVMPAQWEFQVGPCVGVSIGDDLWMARFLLHRIAEDFGIVCTM
DPKPQVGDWNGAGAHTNVSTKATRAEGGIEAIKVAIEKLSKNHDEHIRAYDPHGGKDNER
RLTGRHETSSIHEFKSGVANRGASIRIPRGVSDEGKGYFEDRRPSSNCDPYAVAERILRT
ICLNEY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g6155.t1 | Gene3D | G3DSA:3.10.20.70 | Glutamine synthetase | 2 | 112 | 1.5E-46 |
| 10 | g6155.t1 | Gene3D | G3DSA:3.30.590.40 | - | 113 | 365 | 1.6E-127 |
| 3 | g6155.t1 | PANTHER | PTHR20852:SF44 | GLUTAMINE SYNTHETASE 1, MITOCHONDRIAL | 2 | 364 | 6.4E-179 |
| 4 | g6155.t1 | PANTHER | PTHR20852 | GLUTAMINE SYNTHETASE | 2 | 364 | 6.4E-179 |
| 1 | g6155.t1 | Pfam | PF03951 | Glutamine synthetase, beta-Grasp domain | 31 | 105 | 2.1E-9 |
| 2 | g6155.t1 | Pfam | PF00120 | Glutamine synthetase, catalytic domain | 130 | 260 | 4.5E-10 |
| 8 | g6155.t1 | ProSitePatterns | PS00180 | Glutamine synthetase signature 1. | 64 | 81 | - |
| 7 | g6155.t1 | SMART | SM01230 | Gln_synt_C_2 | 112 | 361 | 1.9E-65 |
| 5 | g6155.t1 | SUPERFAMILY | SSF54368 | Glutamine synthetase, N-terminal domain | 26 | 111 | 1.31E-17 |
| 6 | g6155.t1 | SUPERFAMILY | SSF55931 | Glutamine synthetase/guanido kinase | 113 | 363 | 8.04E-74 |
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:0006807 | nitrogen compound metabolic process | BP |
| GO:0004356 | glutamate-ammonia ligase activity | MF |
| GO:0006542 | glutamine biosynthetic process | BP |
| GO:0003824 | catalytic activity | MF |
KEGG
Orthology
- This transcript has been annotated with K01915 (glutamine synthetase)
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.
