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.t8 TTS g14398.t8 266020 266020
chr_4 g14398 g14398.t8 isoform g14398.t8 266046 268949
chr_4 g14398 g14398.t8 exon g14398.t8.exon1 266046 266525
chr_4 g14398 g14398.t8 cds g14398.t8.CDS1 266046 266525
chr_4 g14398 g14398.t8 exon g14398.t8.exon2 266582 266759
chr_4 g14398 g14398.t8 cds g14398.t8.CDS2 266582 266759
chr_4 g14398 g14398.t8 exon g14398.t8.exon3 266817 267121
chr_4 g14398 g14398.t8 cds g14398.t8.CDS3 266817 267121
chr_4 g14398 g14398.t8 exon g14398.t8.exon4 267178 267689
chr_4 g14398 g14398.t8 cds g14398.t8.CDS4 267178 267689
chr_4 g14398 g14398.t8 exon g14398.t8.exon5 267744 268165
chr_4 g14398 g14398.t8 cds g14398.t8.CDS5 267744 268165
chr_4 g14398 g14398.t8 exon g14398.t8.exon6 268918 268949
chr_4 g14398 g14398.t8 cds g14398.t8.CDS6 268918 268949
chr_4 g14398 g14398.t8 TSS g14398.t8 269106 269106

Sequences

>g14398.t8 Gene=g14398 Length=1929
ATGTTTCGTGTTTTAAAAAGAGTTAGTACAATATCTTTCAATCATCATTCAACCATTAAT
GCTTCGTTTTTGAATCGTAAAATTCATTCCTATCAACTTGCAAATGGATTCGATCCAGCC
GTACTTCCATCTATGGTTCGAAATTTCATTGAAGATTCTGCTCGACTCTGTGAACCTGAT
TCAATACACATTTGTGATGGAAGTGAAAGTGAAAATAAAATGATGCTAAATGAAATGCAA
GCTTCTGGTACAATCGTATCATTACCAAAATACGATAATTGTTGGTTAGCTAAAACAAAT
CCAGCTGATGTTGCTCGTGTTGAAAGTAAAACTTTTATTTGTACTGAAATGAAAGAAGAT
GCTGTTTGTATACCAAAAAAAGGAGTAACTGGTATGCTCGGAAATTGGATTAGTCCTCAA
GATTACGAAAAAGCTATTTTAGACAGATTTCCAGGTTCGATGAGAGGCAGAAAAATGTAT
GTTGTACCATTTTCAATGGGTCCATTAGGTTCAAAACTATCAAAAATTGGAATAGAAATA
ACGGACTCCCCATATGTCGTCGCATCAATGCGTATTATGACTCGAATGGGTTCATCCGTT
TTAGACTTAATTGATGATGATTTTGTTCGTTGTCTTCATTCTATTGGGCGTCCTGCAAGT
GGAATCATTGAAATGCCTTCATGGATTTGTGATCCACAAAGAACGATCATTTTGCATAAA
GCAGACAAAAATGAAATTGTCTCGTATGGTTCTGCCTATGGTGGAAATGCACTTTTGGGC
AAAAAATGTTTTGCTCTTCGTATTGGAAGTAAAATTGCACAAAGAGAAGGCTGGTTGGCT
GAGCATATGTTGATTCTTGGTATAACAGCACCTAATGGTATAAAAAGATATATTGCTGCT
GCTTTTCCATCTGCTTGCGGTAAGACAAATTTAGCTATGATGATGCCGACATTAAAAGGA
TTTAAGGTTGAATGCGTGGGTGATGATATTGCATGGATGAAATTTGATAAAAATGGCCAA
TTGCGCGCAATTAATCCAGAAAATGGATTTTTTGGTGTTGCTCCTGGCACATCATACGAA
ACAAATCCAAATGCAATGAAAACATGTTTAAAAGATACTATTTTTACAAATGTTGCTTCT
ACTTCTGATGGGGGTGTTTATTGGGAAGGACTTGAAGATTCAATTGGTACAAATATTTCA
ATTACTGATTGGCATGGGAAACCTTGGAAAAGAGGTGTCAATAATACTACATCTGCACAT
CCGAATTCACGATTTTGTGCACCAGCAAAAAATTGTCCAATAATGGATTCTAAATGGGAA
GATCCTGAAGGTGTGCCCATTTCAGCAATTCTTTTCGGTGGACGACGACCTGAAGGTGTT
CCACTTGTTTATGAAGCTTACAATTGGCAGCATGGCGTGATGATCGGGTCCGCTATGCGA
TCAGAGGTTGCAACAGCAGCAGCTGAACATAAGGGAAAAGTTATTATGCATGATCCAATG
GCAATGCGTCCTTTTCTAGGTTATAATTTTGGAAAATATTTACAACATTGGTTAAATATG
GAAGTTGCTGGTTGTAAAATGCCTAAAATTTTTCATGTGAATTGGTTCCTTAAAGGAAAT
GATGGAAAGTTTTTATGGCCAGGATATGGTGAAAATTCACGAGTTCTTGATTGGATTTTA
AAGCGAATTGAAGGTGAAGAGTGTTTTGATGAAACTTCAATTGGAAAAGTTCCATGCAGT
AATTCAATTCGATTAGATGGATTAAAACAAGAAGTTGACATGAAAAAATTATTTAAAATT
GATAAGGAGTTTTGGTTAAAAGAAGTGAAAGAAATTCAAAAGTTTTATGAAGAACAAGTT
GGAAATGATTTGCCAGAGGCAGTGAAAAATGAATTGAATGGATTGAAGGAAAGAGTCGAA
CAAATGTAA

>g14398.t8 Gene=g14398 Length=642
MFRVLKRVSTISFNHHSTINASFLNRKIHSYQLANGFDPAVLPSMVRNFIEDSARLCEPD
SIHICDGSESENKMMLNEMQASGTIVSLPKYDNCWLAKTNPADVARVESKTFICTEMKED
AVCIPKKGVTGMLGNWISPQDYEKAILDRFPGSMRGRKMYVVPFSMGPLGSKLSKIGIEI
TDSPYVVASMRIMTRMGSSVLDLIDDDFVRCLHSIGRPASGIIEMPSWICDPQRTIILHK
ADKNEIVSYGSAYGGNALLGKKCFALRIGSKIAQREGWLAEHMLILGITAPNGIKRYIAA
AFPSACGKTNLAMMMPTLKGFKVECVGDDIAWMKFDKNGQLRAINPENGFFGVAPGTSYE
TNPNAMKTCLKDTIFTNVASTSDGGVYWEGLEDSIGTNISITDWHGKPWKRGVNNTTSAH
PNSRFCAPAKNCPIMDSKWEDPEGVPISAILFGGRRPEGVPLVYEAYNWQHGVMIGSAMR
SEVATAAAEHKGKVIMHDPMAMRPFLGYNFGKYLQHWLNMEVAGCKMPKIFHVNWFLKGN
DGKFLWPGYGENSRVLDWILKRIEGEECFDETSIGKVPCSNSIRLDGLKQEVDMKKLFKI
DKEFWLKEVKEIQKFYEEQVGNDLPEAVKNELNGLKERVEQM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g14398.t8 CDD cd00819 PEPCK_GTP 46 635 0.0
8 g14398.t8 Gene3D G3DSA:3.40.449.10 Phosphoenolpyruvate Carboxykinase 46 280 1.3E-263
10 g14398.t8 Gene3D G3DSA:2.170.8.10 Phosphoenolpyruvate Carboxykinase 84 436 1.3E-263
9 g14398.t8 Gene3D G3DSA:3.90.228.20 - 281 638 1.3E-263
5 g14398.t8 Hamap MF_00452 Phosphoenolpyruvate carboxykinase [GTP] [pckG]. 37 640 41.780338
3 g14398.t8 PANTHER PTHR11561 PHOSPHOENOLPYRUVATE CARBOXYKINASE 25 642 0.0
4 g14398.t8 PANTHER PTHR11561:SF11 PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP], MITOCHONDRIAL 25 642 0.0
11 g14398.t8 PIRSF PIRSF001348 PEP_carboxykin_GTP 26 642 1.6E-277
1 g14398.t8 Pfam PF17297 Phosphoenolpyruvate carboxykinase N-terminal domain 48 274 3.5E-92
2 g14398.t8 Pfam PF00821 Phosphoenolpyruvate carboxykinase C-terminal P-loop domain 278 639 3.0E-164
13 g14398.t8 ProSitePatterns PS00505 Phosphoenolpyruvate carboxykinase (GTP) signature. 302 310 -
7 g14398.t8 SUPERFAMILY SSF68923 PEP carboxykinase N-terminal domain 41 277 3.5E-93
6 g14398.t8 SUPERFAMILY SSF53795 PEP carboxykinase-like 278 641 2.15E-157

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

Pathway

  • This transcript belongs to the following pathways

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