General information for g10478.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glutathione synthetase.
Parent gene
- The parent gene g10478 is located on chr_1: 10098472..10101482 (- 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 | g10478 | g10478.t3 | isoform | g10478.t3 | 10098324 | 10101482 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon1 | 10098324 | 10098530 |
| chr_1 | g10478 | g10478.t3 | TTS | g10478.t3 | 10098330 | 10098330 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon2 | 10098602 | 10098742 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS1 | 10098707 | 10098742 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon3 | 10098806 | 10099504 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS2 | 10098806 | 10099504 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon4 | 10099576 | 10099618 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS3 | 10099576 | 10099618 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon5 | 10100110 | 10100237 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS4 | 10100110 | 10100237 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon6 | 10101004 | 10101216 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS5 | 10101004 | 10101216 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon7 | 10101270 | 10101330 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS6 | 10101270 | 10101330 |
| chr_1 | g10478 | g10478.t3 | exon | g10478.t3.exon8 | 10101394 | 10101482 |
| chr_1 | g10478 | g10478.t3 | cds | g10478.t3.CDS7 | 10101394 | 10101482 |
| chr_1 | g10478 | g10478.t3 | TSS | g10478.t3 | 10101611 | 10101611 |
Sequences
>g10478.t3 Gene=g10478 Length=1581
ATGAGTTATCAAAAAGTTCTACCATCAGCCATTGATTTGCCATTAAATCAAAAAGAACTT
GGTGAAATTATTTCGAAGGCTAAAGATTGGGCATTGATGCATGGGGTCTGTATGCGTTCA
AAGACTAACTTTAGTGCTGATGCATTACAGTTTGCACCATTTGTATTAACTCCATCTTTG
TATCCAAGAAAAGAATTTGAAAAAGCTGTGAATCTCCAAACAGTGTTAAATGAGTTAATG
CATAAAGTTGCTCATGACACTGATTTTTTGAGAGAAACTCTCGCAAGTACTATCCAAGTA
GATGAATTTACCGCTAATTTGTTCAAGATTTACGAAACTGTTTTAAATGAAGGATTTACA
CAGATCCTTAATTTAGGGCTGTTCCGTTCTGATTATTTTAATAACGTTAATAATAAAATA
TTACAAGTGGAATTCAATACAATAGCTTCGTCGTTTGCCGGAATTTCTTCACAGTTTCAG
TCATTTCATAGTTACATATTGAACGAGCTTGGTCATGTCGATAAGACTAAAAATCTGCCA
GAGAATAATGCACTATCTGGATTGTGTTCAGCTATGGTTGAAGCTTGGAATATAATTGGA
AATCAAAAAGCTGCCATTCTATTTGTGATTGAAGATGTTACTTATAATATTTGTGATCAG
CGTTTTCATGAATTTGAAATACGTGAAAAGTATCCACATGTTAAAGTCATTCGTCGGACT
TTGACAGAAATTTTCAATACTGGTGTATTGGGATCTAATAAAGAACTAATTGTCGATGGC
ATTGTTGTAAGTGTTGTATATTTCCGTTCTGGTTATGAGCCAAATCAATATCCATCGAAA
AATGAATGGGATGCAAGACTTATGATTGAGCGATCAAATGCAATAAAGTGTCCTTCTATA
CATTATCATCTTGCCGGAACAAAAAAAGTGCAACAAGCTCTTGCTAAAAAAGGAGTTCTA
AATAGATTTCTTTCAAATGAGACAGATATACAAAAAGTTCAAGAGATTTTTACAGGACTT
TATTCTCTTGATAAAAAAGAAGGCGGAGATGAAGTTGTTGATATGGTACTTAAAAATCCT
GAGAGTTTTGTTATGAAACCGCAACGAGAAGGCGGTGGAAATAATATTTATGGAGTTGAT
ATTCCAGAAAAACTTACAGCTATGAGCGATGACGAACGATCAGCTTATATTGTTATGGAT
CGTATTTTTCCACCAATCTCTAAAAGTTATATGGTGGACAAATGCAACCTGAAATTGTCG
AAATGGTGAGTGAGCTTGGGATTTTTGGAGCAATAATTGGAACAAAAGATAAAATTTTAT
ACAATCGTCAAGTCGGACACATGCTGAGAACAAAAGTGTCTAACGCTAATGAAGGTGGAG
TAGCTGCTGGTTTAGGTGCTCTTGACAGTCCATATCTCTTTGATTCAGAATAATAATAAT
AATAAATTTTATTGTATTTCTTTTATATGTAAAACATTTTTTAAACATTAATGACTGCAT
ACAGAAAAACATATATATTTTTAATATGGTGATGGTTGATAAATCAATAAATTTTATCAA
TTTAATAAAATCAAAAATACT
>g10478.t3 Gene=g10478 Length=422
MSYQKVLPSAIDLPLNQKELGEIISKAKDWALMHGVCMRSKTNFSADALQFAPFVLTPSL
YPRKEFEKAVNLQTVLNELMHKVAHDTDFLRETLASTIQVDEFTANLFKIYETVLNEGFT
QILNLGLFRSDYFNNVNNKILQVEFNTIASSFAGISSQFQSFHSYILNELGHVDKTKNLP
ENNALSGLCSAMVEAWNIIGNQKAAILFVIEDVTYNICDQRFHEFEIREKYPHVKVIRRT
LTEIFNTGVLGSNKELIVDGIVVSVVYFRSGYEPNQYPSKNEWDARLMIERSNAIKCPSI
HYHLAGTKKVQQALAKKGVLNRFLSNETDIQKVQEIFTGLYSLDKKEGGDEVVDMVLKNP
ESFVMKPQREGGGNNIYGVDIPEKLTAMSDDERSAYIVMDRIFPPISKSYMVDKCNLKLS
KW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10478.t3 | Gene3D | G3DSA:3.30.1490.80 | - | 20 | 415 | 0 |
| 7 | g10478.t3 | Gene3D | G3DSA:3.30.470.20 | - | 60 | 157 | 0 |
| 8 | g10478.t3 | Gene3D | G3DSA:1.10.1080.10 | Glutathione Synthetase; Chain A | 72 | 339 | 0 |
| 9 | g10478.t3 | Gene3D | G3DSA:3.40.50.1760 | - | 182 | 306 | 0 |
| 11 | g10478.t3 | Gene3D | G3DSA:3.30.1490.50 | - | 340 | 406 | 0 |
| 3 | g10478.t3 | PANTHER | PTHR11130:SF0 | GLUTATHIONE SYNTHETASE | 11 | 415 | 0 |
| 4 | g10478.t3 | PANTHER | PTHR11130 | GLUTATHIONE SYNTHETASE | 11 | 415 | 0 |
| 13 | g10478.t3 | PIRSF | PIRSF001558 | GSHase | 2 | 421 | 0 |
| 1 | g10478.t3 | Pfam | PF03917 | Eukaryotic glutathione synthase, ATP binding domain | 18 | 413 | 0 |
| 2 | g10478.t3 | Pfam | PF03199 | Eukaryotic glutathione synthase | 205 | 305 | 0 |
| 6 | g10478.t3 | SUPERFAMILY | SSF56059 | Glutathione synthetase ATP-binding domain-like | 12 | 413 | 0 |
| 5 | g10478.t3 | SUPERFAMILY | SSF52440 | PreATP-grasp domain | 203 | 307 | 0 |
| 12 | g10478.t3 | TIGRFAM | TIGR01986 | glut_syn_euk: glutathione synthetase | 21 | 413 | 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:0005524 | ATP binding | MF |
| GO:0004363 | glutathione synthase activity | MF |
| GO:0006750 | glutathione biosynthetic process | BP |
| GO:0016874 | ligase activity | MF |
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.
