General information for g14398.t9
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.t9 | TTS | g14398.t9 | 266020 | 266020 |
| chr_4 | g14398 | g14398.t9 | isoform | g14398.t9 | 266836 | 268949 |
| chr_4 | g14398 | g14398.t9 | exon | g14398.t9.exon1 | 266836 | 267121 |
| chr_4 | g14398 | g14398.t9 | cds | g14398.t9.CDS1 | 266837 | 267121 |
| chr_4 | g14398 | g14398.t9 | exon | g14398.t9.exon2 | 267178 | 267689 |
| chr_4 | g14398 | g14398.t9 | cds | g14398.t9.CDS2 | 267178 | 267689 |
| chr_4 | g14398 | g14398.t9 | exon | g14398.t9.exon3 | 267744 | 268165 |
| chr_4 | g14398 | g14398.t9 | cds | g14398.t9.CDS3 | 267744 | 268165 |
| chr_4 | g14398 | g14398.t9 | exon | g14398.t9.exon4 | 268918 | 268949 |
| chr_4 | g14398 | g14398.t9 | cds | g14398.t9.CDS4 | 268918 | 268949 |
| chr_4 | g14398 | g14398.t9 | TSS | g14398.t9 | 269106 | 269106 |
Sequences
>g14398.t9 Gene=g14398 Length=1252
ATGTTTCGTGTTTTAAAAAGAGTTAGTACAATATCTTTCAATCATCATTCAACCATTAAT
GCTTCGTTTTTGAATCGTAAAATTCATTCCTATCAACTTGCAAATGGATTCGATCCAGCC
GTACTTCCATCTATGGTTCGAAATTTCATTGAAGATTCTGCTCGACTCTGTGAACCTGAT
TCAATACACATTTGTGATGGAAGTGAAAGTGAAAATAAAATGATGCTAAATGAAATGCAA
GCTTCTGGTACAATCGTATCATTACCAAAATACGATAATTGTTGGTTAGCTAAAACAAAT
CCAGCTGATGTTGCTCGTGTTGAAAGTAAAACTTTTATTTGTACTGAAATGAAAGAAGAT
GCTGTTTGTATACCAAAAAAAGGAGTAACTGGTATGCTCGGAAATTGGATTAGTCCTCAA
GATTACGAAAAAGCTATTTTAGACAGATTTCCAGGTTCGATGAGAGGCAGAAAAATGTAT
GTTGTACCATTTTCAATGGGTCCATTAGGTTCAAAACTATCAAAAATTGGAATAGAAATA
ACGGACTCCCCATATGTCGTCGCATCAATGCGTATTATGACTCGAATGGGTTCATCCGTT
TTAGACTTAATTGATGATGATTTTGTTCGTTGTCTTCATTCTATTGGGCGTCCTGCAAGT
GGAATCATTGAAATGCCTTCATGGATTTGTGATCCACAAAGAACGATCATTTTGCATAAA
GCAGACAAAAATGAAATTGTCTCGTATGGTTCTGCCTATGGTGGAAATGCACTTTTGGGC
AAAAAATGTTTTGCTCTTCGTATTGGAAGTAAAATTGCACAAAGAGAAGGCTGGTTGGCT
GAGCATATGTTGATTCTTGGTATAACAGCACCTAATGGTATAAAAAGATATATTGCTGCT
GCTTTTCCATCTGCTTGCGGTAAGACAAATTTAGCTATGATGATGCCGACATTAAAAGGA
TTTAAGGTTGAATGCGTGGGTGATGATATTGCATGGATGAAATTTGATAAAAATGGCCAA
TTGCGCGCAATTAATCCAGAAAATGGATTTTTTGGTGTTGCTCCTGGCACATCATACGAA
ACAAATCCAAATGCAATGAAAACATGTTTAAAAGATACTATTTTTACAAATGTTGCTTCT
ACTTCTGATGGGGGTGTTTATTGGGAAGGACTTGAAGATTCAATTGGTACAAATATTTCA
ATTACTGATTGGCATGGGAAACCTTGGAAAAGAGGTGTCAATAATACTACAT
>g14398.t9 Gene=g14398 Length=417
MFRVLKRVSTISFNHHSTINASFLNRKIHSYQLANGFDPAVLPSMVRNFIEDSARLCEPD
SIHICDGSESENKMMLNEMQASGTIVSLPKYDNCWLAKTNPADVARVESKTFICTEMKED
AVCIPKKGVTGMLGNWISPQDYEKAILDRFPGSMRGRKMYVVPFSMGPLGSKLSKIGIEI
TDSPYVVASMRIMTRMGSSVLDLIDDDFVRCLHSIGRPASGIIEMPSWICDPQRTIILHK
ADKNEIVSYGSAYGGNALLGKKCFALRIGSKIAQREGWLAEHMLILGITAPNGIKRYIAA
AFPSACGKTNLAMMMPTLKGFKVECVGDDIAWMKFDKNGQLRAINPENGFFGVAPGTSYE
TNPNAMKTCLKDTIFTNVASTSDGGVYWEGLEDSIGTNISITDWHGKPWKRGVNNTT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14398.t9 | Gene3D | G3DSA:3.40.449.10 | Phosphoenolpyruvate Carboxykinase | 30 | 277 | 1.5E-88 |
| 9 | g14398.t9 | Gene3D | G3DSA:3.90.228.20 | - | 278 | 400 | 3.5E-32 |
| 3 | g14398.t9 | PANTHER | PTHR11561 | PHOSPHOENOLPYRUVATE CARBOXYKINASE | 25 | 414 | 1.2E-190 |
| 4 | g14398.t9 | PANTHER | PTHR11561:SF11 | PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP], MITOCHONDRIAL | 25 | 414 | 1.2E-190 |
| 1 | g14398.t9 | Pfam | PF17297 | Phosphoenolpyruvate carboxykinase N-terminal domain | 48 | 274 | 1.3E-92 |
| 2 | g14398.t9 | Pfam | PF00821 | Phosphoenolpyruvate carboxykinase C-terminal P-loop domain | 278 | 412 | 9.1E-66 |
| 7 | g14398.t9 | ProSitePatterns | PS00505 | Phosphoenolpyruvate carboxykinase (GTP) signature. | 302 | 310 | - |
| 6 | g14398.t9 | SUPERFAMILY | SSF68923 | PEP carboxykinase N-terminal domain | 41 | 277 | 1.2E-93 |
| 5 | g14398.t9 | SUPERFAMILY | SSF53795 | PEP carboxykinase-like | 278 | 413 | 1.17E-64 |
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.
