General information for g14398.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphoenolpyruvate carboxykinase [GTP].
Parent gene
- The parent gene g14398 is located on chr_4: 268472..269449 (- 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_4 | g14398 | g14398.t4 | TTS | g14398.t4 | 266020 | 266020 |
| chr_4 | g14398 | g14398.t4 | isoform | g14398.t4 | 266046 | 267656 |
| chr_4 | g14398 | g14398.t4 | exon | g14398.t4.exon1 | 266046 | 266525 |
| chr_4 | g14398 | g14398.t4 | cds | g14398.t4.CDS1 | 266046 | 266525 |
| chr_4 | g14398 | g14398.t4 | exon | g14398.t4.exon2 | 266585 | 266759 |
| chr_4 | g14398 | g14398.t4 | cds | g14398.t4.CDS2 | 266585 | 266759 |
| chr_4 | g14398 | g14398.t4 | exon | g14398.t4.exon3 | 266817 | 267121 |
| chr_4 | g14398 | g14398.t4 | cds | g14398.t4.CDS3 | 266817 | 267121 |
| chr_4 | g14398 | g14398.t4 | exon | g14398.t4.exon4 | 267178 | 267656 |
| chr_4 | g14398 | g14398.t4 | cds | g14398.t4.CDS4 | 267178 | 267648 |
| chr_4 | g14398 | g14398.t4 | TSS | g14398.t4 | 268477 | 268477 |
Sequences
>g14398.t4 Gene=g14398 Length=1439
CATTTTCAATGGGTCCATTAGGTTCAAAACTATCAAAAATTGGAATAGAAATAACGGACT
CCCCATATGTCGTCGCATCAATGCGTATTATGACTCGAATGGGTTCATCCGTTTTAGACT
TAATTGATGATGATTTTGTTCGTTGTCTTCATTCTATTGGGCGTCCTGCAAGTGGAATCA
TTGAAATGCCTTCATGGATTTGTGATCCACAAAGAACGATCATTTTGCATAAAGCAGACA
AAAATGAAATTGTCTCGTATGGTTCTGCCTATGGTGGAAATGCACTTTTGGGCAAAAAAT
GTTTTGCTCTTCGTATTGGAAGTAAAATTGCACAAAGAGAAGGCTGGTTGGCTGAGCATA
TGTTGATTCTTGGTATAACAGCACCTAATGGTATAAAAAGATATATTGCTGCTGCTTTTC
CATCTGCTTGCGGTAAGACAAATTTAGCTATGATGATGCCGACATTAAAAGGATTTAAGG
TTGAATGCGTGGGTGATGATATTGCATGGATGAAATTTGATAAAAATGGCCAATTGCGCG
CAATTAATCCAGAAAATGGATTTTTTGGTGTTGCTCCTGGCACATCATACGAAACAAATC
CAAATGCAATGAAAACATGTTTAAAAGATACTATTTTTACAAATGTTGCTTCTACTTCTG
ATGGGGGTGTTTATTGGGAAGGACTTGAAGATTCAATTGGTACAAATATTTCAATTACTG
ATTGGCATGGGAAACCTTGGAAAAGAGGTGTCAATAATACTACATCTGCACATCCGAATT
CACGATTTTGTGCACCAGCAAAAAATTGTCCAATAATGGATTCTAAATGGGAAGATCCTG
AAGGTGTGCCCATTTCAGCAATTCTTTTCGGTGGACGACGACCTGAAGGTGTTCCACTTG
TTTATGAAGCTTACAATTGGCAGCATGGCGTGATGATCGGGTCCGCTATGCGATCAGAGG
CAACAGCAGCAGCTGAACATAAGGGAAAAGTTATTATGCATGATCCAATGGCAATGCGTC
CTTTTCTAGGTTATAATTTTGGAAAATATTTACAACATTGGTTAAATATGGAAGTTGCTG
GTTGTAAAATGCCTAAAATTTTTCATGTGAATTGGTTCCTTAAAGGAAATGATGGAAAGT
TTTTATGGCCAGGATATGGTGAAAATTCACGAGTTCTTGATTGGATTTTAAAGCGAATTG
AAGGTGAAGAGTGTTTTGATGAAACTTCAATTGGAAAAGTTCCATGCAGTAATTCAATTC
GATTAGATGGATTAAAACAAGAAGTTGACATGAAAAAATTATTTAAAATTGATAAGGAGT
TTTGGTTAAAAGAAGTGAAAGAAATTCAAAAGTTTTATGAAGAACAAGTTGGAAATGATT
TGCCAGAGGCAGTGAAAAATGAATTGAATGGATTGAAGGAAAGAGTCGAACAAATGTAA
>g14398.t4 Gene=g14398 Length=476
MGPLGSKLSKIGIEITDSPYVVASMRIMTRMGSSVLDLIDDDFVRCLHSIGRPASGIIEM
PSWICDPQRTIILHKADKNEIVSYGSAYGGNALLGKKCFALRIGSKIAQREGWLAEHMLI
LGITAPNGIKRYIAAAFPSACGKTNLAMMMPTLKGFKVECVGDDIAWMKFDKNGQLRAIN
PENGFFGVAPGTSYETNPNAMKTCLKDTIFTNVASTSDGGVYWEGLEDSIGTNISITDWH
GKPWKRGVNNTTSAHPNSRFCAPAKNCPIMDSKWEDPEGVPISAILFGGRRPEGVPLVYE
AYNWQHGVMIGSAMRSEATAAAEHKGKVIMHDPMAMRPFLGYNFGKYLQHWLNMEVAGCK
MPKIFHVNWFLKGNDGKFLWPGYGENSRVLDWILKRIEGEECFDETSIGKVPCSNSIRLD
GLKQEVDMKKLFKIDKEFWLKEVKEIQKFYEEQVGNDLPEAVKNELNGLKERVEQM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g14398.t4 | CDD | cd00819 | PEPCK_GTP | 1 | 469 | 0.0 |
| 9 | g14398.t4 | Gene3D | G3DSA:3.40.449.10 | Phosphoenolpyruvate Carboxykinase | 1 | 111 | 6.7E-225 |
| 10 | g14398.t4 | Gene3D | G3DSA:3.90.228.20 | - | 113 | 470 | 6.7E-225 |
| 11 | g14398.t4 | Gene3D | G3DSA:2.170.8.10 | Phosphoenolpyruvate Carboxykinase | 185 | 267 | 6.7E-225 |
| 5 | g14398.t4 | Hamap | MF_00452 | Phosphoenolpyruvate carboxykinase [GTP] [pckG]. | 1 | 474 | 30.979801 |
| 3 | g14398.t4 | PANTHER | PTHR11561 | PHOSPHOENOLPYRUVATE CARBOXYKINASE | 1 | 476 | 1.1E-244 |
| 4 | g14398.t4 | PANTHER | PTHR11561:SF11 | PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP], MITOCHONDRIAL | 1 | 476 | 1.1E-244 |
| 1 | g14398.t4 | Pfam | PF17297 | Phosphoenolpyruvate carboxykinase N-terminal domain | 1 | 109 | 2.6E-45 |
| 2 | g14398.t4 | Pfam | PF00821 | Phosphoenolpyruvate carboxykinase C-terminal P-loop domain | 113 | 473 | 1.6E-166 |
| 8 | g14398.t4 | ProSitePatterns | PS00505 | Phosphoenolpyruvate carboxykinase (GTP) signature. | 137 | 145 | - |
| 7 | g14398.t4 | SUPERFAMILY | SSF68923 | PEP carboxykinase N-terminal domain | 1 | 112 | 6.8E-44 |
| 6 | g14398.t4 | SUPERFAMILY | SSF53795 | PEP carboxykinase-like | 113 | 475 | 2.52E-160 |
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:0004613 | phosphoenolpyruvate carboxykinase (GTP) activity | MF |
| GO:0006094 | gluconeogenesis | BP |
| GO:0005525 | GTP binding | MF |
| GO:0004611 | phosphoenolpyruvate carboxykinase activity | MF |
| GO:0017076 | purine nucleotide binding | 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.
