General information for g4907.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutamine synthetase 1, mitochondrial.
Parent gene
- The parent gene g4907 is located on chr_2: 5867305..5867811 (- 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 | g4907 | g4907.t3 | isoform | g4907.t3 | 5866894 | 5867811 |
| chr_2 | g4907 | g4907.t3 | exon | g4907.t3.exon1 | 5866894 | 5867220 |
| chr_2 | g4907 | g4907.t3 | cds | g4907.t3.CDS1 | 5866894 | 5867220 |
| chr_2 | g4907 | g4907.t3 | exon | g4907.t3.exon2 | 5867305 | 5867811 |
| chr_2 | g4907 | g4907.t3 | cds | g4907.t3.CDS2 | 5867305 | 5867484 |
| chr_2 | g4907 | g4907.t3 | TTS | g4907.t3 | 5867676 | 5867676 |
| chr_2 | g4907 | g4907.t3 | TSS | g4907.t3 | 5867970 | 5867970 |
Sequences
>g4907.t3 Gene=g4907 Length=834
ATTATAAGTTGAGCATTCGAACTAATCGGTTGCTTCAATAATTTCTCTCTCATTCGAAAC
TCTACAAGTGAATTTAATTTAACTTCATTTTTCAAGTGCAAGGAAAAAATCTCTTTTATT
TTCAAGGTTTCGAGACAAATTAAAAAAAAAATCAATAGTACACTGCGCATTCAATTTCAC
AACATAAACTAACTCTATTTTTTGGTGATAACAAACAAGATAGATAAAAGTGAGAAATTG
AATATTTCCAAAGTACGCGTCAAAACATTACATAAAAAAAAGTATTTTCCCGTTCGTCGT
GTATAAATTATAAAGAAAGAGAAAAAGATGGCTTTAAGATGTTTGGGTGTTTTCATACGA
AAGGAAATGACTGGAGAAATTACGCGCAGAATCAGCACCTCAACAACACGCGCTAACTTC
CTTAGAGAGTCACCAAATGCACATCTCAATAAGACACTGCTTAAACGTTACACTGGATTA
AAATATGATCAAAATAAGTTTGTTCAGTGTACATATTTGTGGTTGGATGGTACCAATGAA
CATTTAAGATTAAAAGATAGAGTTCTTAAAAAAATTCCTGAGAGACCAGAAGATTGTCCT
AATTGGCAATATGATGGATCAAGTACATATCAAGCCTTGGGAGAAAATTCAGATATTACT
CTCGTTCCACGTGCACTTTATAAAGATCCGTTTAAAGCTGGTGAAAACGACGTAATCGTT
CTTTGTGATACATATAAGCCAGATGGATCACCAACCGATACCAATTACCGTGCAGCAATG
CAAGCAGCATATGATAAAACAAAAGATTTAGAACCTTGGTTTGGCATCGAACAG
>g4907.t3 Gene=g4907 Length=169
MALRCLGVFIRKEMTGEITRRISTSTTRANFLRESPNAHLNKTLLKRYTGLKYDQNKFVQ
CTYLWLDGTNEHLRLKDRVLKKIPERPEDCPNWQYDGSSTYQALGENSDITLVPRALYKD
PFKAGENDVIVLCDTYKPDGSPTDTNYRAAMQAAYDKTKDLEPWFGIEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4907.t3 | Gene3D | G3DSA:3.10.20.70 | Glutamine synthetase | 32 | 144 | 2.4E-38 |
| 2 | g4907.t3 | PANTHER | PTHR20852:SF44 | GLUTAMINE SYNTHETASE 1, MITOCHONDRIAL | 22 | 169 | 5.3E-61 |
| 3 | g4907.t3 | PANTHER | PTHR20852 | GLUTAMINE SYNTHETASE | 22 | 169 | 5.3E-61 |
| 1 | g4907.t3 | Pfam | PF03951 | Glutamine synthetase, beta-Grasp domain | 57 | 138 | 2.7E-10 |
| 5 | g4907.t3 | ProSitePatterns | PS00180 | Glutamine synthetase signature 1. | 95 | 112 | - |
| 4 | g4907.t3 | SUPERFAMILY | SSF54368 | Glutamine synthetase, N-terminal domain | 54 | 143 | 9.29E-13 |
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 |
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.
