General information for g4397.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative GMP synthase [glutamine-hydrolyzing].
Parent gene
- The parent gene g4397 is located on chr_2: 1966108..1967482 (- 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 | g4397 | g4397.t3 | isoform | g4397.t3 | 1962688 | 1964189 |
| chr_2 | g4397 | g4397.t3 | exon | g4397.t3.exon1 | 1962688 | 1963575 |
| chr_2 | g4397 | g4397.t3 | TTS | g4397.t3 | 1962709 | 1962709 |
| chr_2 | g4397 | g4397.t3 | cds | g4397.t3.CDS1 | 1963471 | 1963575 |
| chr_2 | g4397 | g4397.t3 | exon | g4397.t3.exon2 | 1963633 | 1963824 |
| chr_2 | g4397 | g4397.t3 | cds | g4397.t3.CDS2 | 1963633 | 1963824 |
| chr_2 | g4397 | g4397.t3 | exon | g4397.t3.exon3 | 1963889 | 1964118 |
| chr_2 | g4397 | g4397.t3 | cds | g4397.t3.CDS3 | 1963889 | 1964053 |
| chr_2 | g4397 | g4397.t3 | exon | g4397.t3.exon4 | 1964185 | 1964189 |
| chr_2 | g4397 | g4397.t3 | TSS | g4397.t3 | NA | NA |
Sequences
>g4397.t3 Gene=g4397 Length=1315
ACAGGGTGATAAGCGCTCTTACAATTATGTAGTTGGTCTTTCAAGTCAGACACCGCCAAA
TTGGCAAGACATGATATTTTTAGCGAAATTGATTCCGAGGATTTTACACAATGTAAATCG
TGTGTGCTTTATTTTTGGCAATCCAGTTATGTATCAAATAACAGATGTTACTCACACATT
CTTGAGCAAATATACAGTGGGACAAGTTCGTCAAGCAGATTATATTGTAAATACTATTCT
CAATGAATTCAATTTGATGAAAGGAATTTCACAAATGCCGGTTGTTTTAGTACCTCTGCA
TTTTGATAGAGATCCAGTTGATCGTAAACCATCAGCTCAGAGGTCAATTGTATTGCGACC
TTTTATAACTAACGATTTTATGACAGGTGTTCCAGTTATTCCTGGAAGTGAACAGTTGCC
AATTCAAGCAATTGAGAGAATTGTAACAGAGATTCTTGCAAATGTACCCGGCATTTCGAG
AGTCATGTATGATCTCACAAGTAAACCACCCGGCACAACGGAATGGGAGTGAAATCAACT
GAGCTAATGAGAAAAAGAATATAAATCTAACTCTGCATGAAATTAATAGTAAGGAGAGAA
ACAATTAACTAATCGTTGCATAATTATTAAAAATATATTTTTAATTGTTGAATGTGCGGA
AGATTTTTTCAAGGATTCAGCAAATTCATACACGACGAATGATATAAAGAATCACATAAG
AGCCTCTATGAAAGCCATTGAAATAATTAAATTTTGTTTTGAATTTTTTTGTCAAAACTT
ATTTAGTACAATCGTACTCTTTAAAAAAATTACAATAGTAAATTAAAATTCATGAGGAGA
CTAAAGAATGATAGAGGAAATATGTGAATATATGTGCTTTTATTATCAAAGCAGCTCCTT
TATAAAAACTGTTTTTTGACAGATTACTCTTTAAATCAAAATAAATTTTGCTGAACAAAA
AAAAACTCCCAGTGCTTCAAATTGTCCATGTCTATTTACCTTTTTCATTTTCACTGTTTA
GTTTAAAGAAACAACAAAACTTTTTTTAATATTAAAAAGGAAAATTATGCTATTCTTTTA
AAAAAAATTCCTTTAATTTATTTCCTTTGAAAACTTTTTTAATTATAATATTAGCAAAAC
TACACACACAAACAACAAAACCATCAAAAAAGCAACAAAAACAGAGAATGGATTTTAAAT
CTTTGTTCACCTAAAATGAAATGTAATTTTGAGAGCGACAGTGAAAATATAAAAAAAATA
AGACGAATAAAAATGATGATGAATGAATTTTATTAAATTTTATGATAACTTTTTT
>g4397.t3 Gene=g4397 Length=153
MIFLAKLIPRILHNVNRVCFIFGNPVMYQITDVTHTFLSKYTVGQVRQADYIVNTILNEF
NLMKGISQMPVVLVPLHFDRDPVDRKPSAQRSIVLRPFITNDFMTGVPVIPGSEQLPIQA
IERIVTEILANVPGISRVMYDLTSKPPGTTEWE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4397.t3 | Gene3D | G3DSA:3.30.300.10 | - | 40 | 153 | 0 |
| 2 | g4397.t3 | PANTHER | PTHR43418:SF3 | GMP SYNTHASE [GLUTAMINE-HYDROLYZING] SUBUNIT B | 58 | 151 | 0 |
| 3 | g4397.t3 | PANTHER | PTHR43418 | MULTIFUNCTIONAL TRYPTOPHAN BIOSYNTHESIS PROTEIN-RELATED | 58 | 151 | 0 |
| 1 | g4397.t3 | Pfam | PF00958 | GMP synthase C terminal domain | 58 | 152 | 0 |
| 4 | g4397.t3 | SUPERFAMILY | SSF54810 | GMP synthetase C-terminal dimerisation domain | 40 | 153 | 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:0003922 | GMP synthase (glutamine-hydrolyzing) activity | MF |
| GO:0005524 | ATP binding | MF |
| GO:0006177 | GMP biosynthetic process | BP |
| GO:0006164 | purine nucleotide 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.
