General information for g4907.t1
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.t1 | TTS | g4907.t1 | 5865849 | 5865849 |
| chr_2 | g4907 | g4907.t1 | isoform | g4907.t1 | 5866004 | 5867484 |
| chr_2 | g4907 | g4907.t1 | exon | g4907.t1.exon1 | 5866004 | 5866341 |
| chr_2 | g4907 | g4907.t1 | cds | g4907.t1.CDS1 | 5866004 | 5866341 |
| chr_2 | g4907 | g4907.t1 | exon | g4907.t1.exon2 | 5866406 | 5866433 |
| chr_2 | g4907 | g4907.t1 | cds | g4907.t1.CDS2 | 5866406 | 5866433 |
| chr_2 | g4907 | g4907.t1 | exon | g4907.t1.exon3 | 5866507 | 5866824 |
| chr_2 | g4907 | g4907.t1 | cds | g4907.t1.CDS3 | 5866507 | 5866824 |
| chr_2 | g4907 | g4907.t1 | exon | g4907.t1.exon4 | 5866894 | 5867220 |
| chr_2 | g4907 | g4907.t1 | cds | g4907.t1.CDS4 | 5866894 | 5867220 |
| chr_2 | g4907 | g4907.t1 | exon | g4907.t1.exon5 | 5867305 | 5867484 |
| chr_2 | g4907 | g4907.t1 | cds | g4907.t1.CDS5 | 5867305 | 5867484 |
| chr_2 | g4907 | g4907.t1 | TSS | g4907.t1 | 5867970 | 5867970 |
Sequences
>g4907.t1 Gene=g4907 Length=1191
ATGGCTTTAAGATGTTTGGGTGTTTTCATACGAAAGGAAATGACTGGAGAAATTACGCGC
AGAATCAGCACCTCAACAACACGCGCTAACTTCCTTAGAGAGTCACCAAATGCACATCTC
AATAAGACACTGCTTAAACGTTACACTGGATTAAAATATGATCAAAATAAGTTTGTTCAG
TGTACATATTTGTGGTTGGATGGTACCAATGAACATTTAAGATTAAAAGATAGAGTTCTT
AAAAAAATTCCTGAGAGACCAGAAGATTGTCCTAATTGGCAATATGATGGATCAAGTACA
TATCAAGCCTTGGGAGAAAATTCAGATATTACTCTCGTTCCACGTGCACTTTATAAAGAT
CCGTTTAAAGCTGGTGAAAACGACGTAATCGTTCTTTGTGATACATATAAGCCAGATGGA
TCACCAACCGATACCAATTACCGTGCAGCAATGCAAGCAGCATATGATAAAACAAAAGAT
TTAGAACCTTGGTTTGGCATCGAACAGGAATATACATTTTTGGATGTCGATAAACGCCCA
TTAGGTTGGCCTGCTAACGGATTTCCAGGTCCACAAGGACCCTATTATTGTGGTGTTGGA
GCTGATAAAGTTATCGCTCGTGATATTGTTGAAGCTCATGCATTGGCTTGTATCTATGCT
GGTGTTGAATTTGCAGGCACAAATGCTGAAGTGATGCCTGCACAGTGGGAGTATCAAATT
GGACCATCACTTGGAATGAAAGCTGCCGATGATTTATGGGTATCACGTTACATTTTGTGG
CGCATTGCAGAAGAATTTGGCGTTGTTGTGACATTTGATCCAAAGCCCATGGAAGGAAAC
TGGAACGGCGCTGGTGGACATACAAATTTCTCAACAAAACCAATGCGAGAAGAAGGTGGC
ATAAAATGTATTGAGCAAGCAATTGAAAAACTTTCAAAGCAGCACAAAAAACACATTCAA
GCTTATGATCCTAGAGGGGGCAAGGATAACGAAAGACGTCTTGTTGGACGCTTAGAAACA
TCATCAATTGATAAGTTTTCATGGGGTGTTGCAGATCGTAGTTGCAGTGTAAGAATTCCA
AGAGGTGTAGCAAGCGCGAAAAAAGGTTATCTTGAAGACAGAAGACCTTCATCAAACATG
GATCCATACAGCGTTTGCAATGCCATTCTCACTACATGTTTGTTGGATTAA
>g4907.t1 Gene=g4907 Length=396
MALRCLGVFIRKEMTGEITRRISTSTTRANFLRESPNAHLNKTLLKRYTGLKYDQNKFVQ
CTYLWLDGTNEHLRLKDRVLKKIPERPEDCPNWQYDGSSTYQALGENSDITLVPRALYKD
PFKAGENDVIVLCDTYKPDGSPTDTNYRAAMQAAYDKTKDLEPWFGIEQEYTFLDVDKRP
LGWPANGFPGPQGPYYCGVGADKVIARDIVEAHALACIYAGVEFAGTNAEVMPAQWEYQI
GPSLGMKAADDLWVSRYILWRIAEEFGVVVTFDPKPMEGNWNGAGGHTNFSTKPMREEGG
IKCIEQAIEKLSKQHKKHIQAYDPRGGKDNERRLVGRLETSSIDKFSWGVADRSCSVRIP
RGVASAKKGYLEDRRPSSNMDPYSVCNAILTTCLLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4907.t1 | Coils | Coil | Coil | 301 | 321 | - |
| 10 | g4907.t1 | Gene3D | G3DSA:3.10.20.70 | Glutamine synthetase | 32 | 144 | 1.8E-37 |
| 11 | g4907.t1 | Gene3D | G3DSA:3.30.590.40 | - | 145 | 396 | 3.2E-121 |
| 3 | g4907.t1 | PANTHER | PTHR20852:SF44 | GLUTAMINE SYNTHETASE 1, MITOCHONDRIAL | 22 | 396 | 1.9E-207 |
| 4 | g4907.t1 | PANTHER | PTHR20852 | GLUTAMINE SYNTHETASE | 22 | 396 | 1.9E-207 |
| 1 | g4907.t1 | Pfam | PF03951 | Glutamine synthetase, beta-Grasp domain | 57 | 138 | 1.6E-9 |
| 2 | g4907.t1 | Pfam | PF00120 | Glutamine synthetase, catalytic domain | 152 | 293 | 2.6E-13 |
| 8 | g4907.t1 | ProSitePatterns | PS00180 | Glutamine synthetase signature 1. | 95 | 112 | - |
| 9 | g4907.t1 | ProSitePatterns | PS00181 | Glutamine synthetase putative ATP-binding region signature. | 275 | 291 | - |
| 7 | g4907.t1 | SMART | SM01230 | Gln_synt_C_2 | 142 | 393 | 5.4E-68 |
| 5 | g4907.t1 | SUPERFAMILY | SSF54368 | Glutamine synthetase, N-terminal domain | 54 | 143 | 6.02E-12 |
| 6 | g4907.t1 | SUPERFAMILY | SSF55931 | Glutamine synthetase/guanido kinase | 145 | 395 | 8.73E-75 |
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.
