General information for g14398.t3
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.t3 | TTS | g14398.t3 | 266020 | 266020 |
| chr_4 | g14398 | g14398.t3 | isoform | g14398.t3 | 266046 | 266821 |
| chr_4 | g14398 | g14398.t3 | exon | g14398.t3.exon1 | 266046 | 266515 |
| chr_4 | g14398 | g14398.t3 | cds | g14398.t3.CDS1 | 266046 | 266515 |
| chr_4 | g14398 | g14398.t3 | exon | g14398.t3.exon2 | 266575 | 266759 |
| chr_4 | g14398 | g14398.t3 | cds | g14398.t3.CDS2 | 266575 | 266728 |
| chr_4 | g14398 | g14398.t3 | exon | g14398.t3.exon3 | 266817 | 266821 |
| chr_4 | g14398 | g14398.t3 | TSS | g14398.t3 | NA | NA |
Sequences
>g14398.t3 Gene=g14398 Length=660
TCACGATTTTGTGCACCAGCAAAAAATTGTCCAATAATGGATTCTAAATGGGAAGATCCT
GAAGGTGTGCCCATTTCAGCAATTCTTTTCGGTGGACGACGACCTGAAGGTGTTCCACTT
GTTTATGAAGCTTACAATTGGCAGCATGGCGTGATGATCGGGTCCGCTATGCGATCAGAG
GTTGTAATTGCAGCTGAACATAAGGGAAAAGTTATTATGCATGATCCAATGGCAATGCGT
CCTTTTCTAGGTTATAATTTTGGAAAATATTTACAACATTGGTTAAATATGGAAGTTGCT
GGTTGTAAAATGCCTAAAATTTTTCATGTGAATTGGTTCCTTAAAGGAAATGATGGAAAG
TTTTTATGGCCAGGATATGGTGAAAATTCACGAGTTCTTGATTGGATTTTAAAGCGAATT
GAAGGTGAAGAGTGTTTTGATGAAACTTCAATTGGAAAAGTTCCATGCAGTAATTCAATT
CGATTAGATGGATTAAAACAAGAAGTTGACATGAAAAAATTATTTAAAATTGATAAGGAG
TTTTGGTTAAAAGAAGTGAAAGAAATTCAAAAGTTTTATGAAGAACAAGTTGGAAATGAT
TTGCCAGAGGCAGTGAAAAATGAATTGAATGGATTGAAGGAAAGAGTCGAACAAATGTAA
>g14398.t3 Gene=g14398 Length=207
MDSKWEDPEGVPISAILFGGRRPEGVPLVYEAYNWQHGVMIGSAMRSEVVIAAEHKGKVI
MHDPMAMRPFLGYNFGKYLQHWLNMEVAGCKMPKIFHVNWFLKGNDGKFLWPGYGENSRV
LDWILKRIEGEECFDETSIGKVPCSNSIRLDGLKQEVDMKKLFKIDKEFWLKEVKEIQKF
YEEQVGNDLPEAVKNELNGLKERVEQM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14398.t3 | Gene3D | G3DSA:3.90.228.20 | - | 1 | 205 | 0 |
| 2 | g14398.t3 | PANTHER | PTHR11561 | PHOSPHOENOLPYRUVATE CARBOXYKINASE | 1 | 207 | 0 |
| 3 | g14398.t3 | PANTHER | PTHR11561:SF1 | PHOSPHOENOLPYRUVATE CARBOXYKINASE, CYTOSOLIC [GTP] | 1 | 207 | 0 |
| 1 | g14398.t3 | Pfam | PF00821 | Phosphoenolpyruvate carboxykinase C-terminal P-loop domain | 2 | 204 | 0 |
| 4 | g14398.t3 | SUPERFAMILY | SSF53795 | PEP carboxykinase-like | 2 | 206 | 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: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.
