Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphoenolpyruvate carboxykinase [GTP].

Parent gene

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.t11 isoform g14398.t11 267172 268949
chr_4 g14398 g14398.t11 exon g14398.t11.exon1 267172 267689
chr_4 g14398 g14398.t11 cds g14398.t11.CDS1 267172 267669
chr_4 g14398 g14398.t11 exon g14398.t11.exon2 267736 268165
chr_4 g14398 g14398.t11 exon g14398.t11.exon3 268918 268949
chr_4 g14398 g14398.t11 TSS g14398.t11 269106 269106
chr_4 g14398 g14398.t11 TTS g14398.t11 NA NA

Sequences

>g14398.t11 Gene=g14398 Length=980
ATGTTTCGTGTTTTAAAAAGAGTTAGTACAATATCTTTCAATCATCATTCAACCATTAAT
GCTTCGTTTTTGAATCGTAAAATTCATTCCTATCAACTTGCAAATGGATTCGATCCAGCC
GTACTTCCATCTATGGTTCGAAATTTCATTGAAGATTCTGCTCGACTCTGTGAACCTGAT
TCAATACACATTTGTGATGGAAGTGAAAGTGAAAATAAAATGATGCTAAATGAAATGCAA
GCTTCTGGTACAATCGTATCATTACCAAAATACGATAATTGTTGGTTAGCTAAAACAAAT
CCAGCTGATGTTGCTCGTGTTGAAAGTAAAACTTTTATTTGTACTGAAATGAAAGAAGAT
GCTGTTTGTATACCAAAAAAAGGAGTAACTGGTATGCTCGGAAATTGGATTAGTCCTCAA
GATTACGAAAAAGCTATTTTAGACAGATTTCCAGGTTATTTCGTTCGATGAGAGGCAGAA
AAATGTATGTTGTACCATTTTCAATGGGTCCATTAGGTTCAAAACTATCAAAAATTGGAA
TAGAAATAACGGACTCCCCATATGTCGTCGCATCAATGCGTATTATGACTCGAATGGGTT
CATCCGTTTTAGACTTAATTGATGATGATTTTGTTCGTTGTCTTCATTCTATTGGGCGTC
CTGCAAGTGGAATCATTGAAATGCCTTCATGGATTTGTGATCCACAAAGAACGATCATTT
TGCATAAAGCAGACAAAAATGAAATTGTCTCGTATGGTTCTGCCTATGGTGGAAATGCAC
TTTTGGGCAAAAAATGTTTTGCTCTTCGTATTGGAAGTAAAATTGCACAAAGAGAAGGCT
GGTTGGCTGAGCATATGTTGATTCTTGGTATAACAGCACCTAATGGTATAAAAAGATATA
TTGCTGCTGCTTTTCCATCTGCTTGCGGTAAGACAAATTTAGCTATGATGATGCCGACAT
TAAAAGGATTTAAGGTTGAA

>g14398.t11 Gene=g14398 Length=166
MYVVPFSMGPLGSKLSKIGIEITDSPYVVASMRIMTRMGSSVLDLIDDDFVRCLHSIGRP
ASGIIEMPSWICDPQRTIILHKADKNEIVSYGSAYGGNALLGKKCFALRIGSKIAQREGW
LAEHMLILGITAPNGIKRYIAAAFPSACGKTNLAMMMPTLKGFKVE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g14398.t11 Gene3D G3DSA:3.40.449.10 Phosphoenolpyruvate Carboxykinase 1 119 1.4E-57
9 g14398.t11 Gene3D G3DSA:3.90.228.20 - 120 166 3.9E-18
3 g14398.t11 PANTHER PTHR11561 PHOSPHOENOLPYRUVATE CARBOXYKINASE 1 166 1.4E-83
4 g14398.t11 PANTHER PTHR11561:SF11 PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP], MITOCHONDRIAL 1 166 1.4E-83
1 g14398.t11 Pfam PF17297 Phosphoenolpyruvate carboxykinase N-terminal domain 1 116 5.8E-52
2 g14398.t11 Pfam PF00821 Phosphoenolpyruvate carboxykinase C-terminal P-loop domain 120 166 5.8E-21
7 g14398.t11 ProSitePatterns PS00505 Phosphoenolpyruvate carboxykinase (GTP) signature. 144 152 -
6 g14398.t11 SUPERFAMILY SSF68923 PEP carboxykinase N-terminal domain 1 119 2.98E-51
5 g14398.t11 SUPERFAMILY SSF53795 PEP carboxykinase-like 120 166 3.36E-19

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. There were no conditions that were differentially expressed