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_3 g2850 g2850.t1 TSS g2850.t1 20642288 20642288
chr_3 g2850 g2850.t1 isoform g2850.t1 20642501 20644603
chr_3 g2850 g2850.t1 exon g2850.t1.exon1 20642501 20642532
chr_3 g2850 g2850.t1 cds g2850.t1.CDS1 20642501 20642532
chr_3 g2850 g2850.t1 exon g2850.t1.exon2 20642677 20644603
chr_3 g2850 g2850.t1 cds g2850.t1.CDS2 20642677 20644603
chr_3 g2850 g2850.t1 TTS g2850.t1 20644740 20644740

Sequences

>g2850.t1 Gene=g2850 Length=1959
ATGCCACAACTCATTGAAAAAGTCTATACACCATTCCAAAAGAATGCTGGACACTACGCC
ACAACAACATCGACCCCAAGCAAATTCAATAATGTTCGAGGTTACACCATTGTCAATGGT
GACATCAACTCACTCCCATTGAAAGTCAAGAATTTCATTGAAGAATCGGCTCTTTTGTGT
CAACCTGATAAAATTCATATTTGTGATGGAAGTGAAATTGAAAATGAAATCTTTACCAAG
TCTCTTTTGGAAGCTGGTACTTTAATTCCATTGCCAAAGTATCAAAATTGTTATTTGGCT
CGTACTAATCCAGCTGATGTCGCTCGTGTTGAGAGTAAAACTTTCATTTGCACTCCTCAT
CGTGAACAAGCTGTTTGCACACCACGTCCAGGAATTCAAGGCACATTGGGACACTGGATT
AGCCCAAAGGACTATGATGACGCTATTATGAATAGATTCCCAGGATGCATGAAGGGTCGC
ACAATGTATGTTGTTCCATTCTCGATGGGTCCAGTTGGTTCACCATTAAGCAAAGTCGGA
ATTGAAATCACTGATTCGCAATATGTTGTCTGTTCAATGCGTATTATGACTCGTATGGGT
TCACTCGTTATGGATGAAATTATCAAGAATAATGTTGACTTTGTAAAATGCTTGCATTCA
GTTGGAACACCTGAAAGTGGAAAAGTTGCAATGGAATCATGGCCATGCGATCCAGATCGT
GTGATCATTTTGCATAAACCAGAAAATAATGAAATTGTCTCATATGGTTCAGCTTATGGT
GGCAATGCAATTTTGGGAAAGAAATGCTTTGCTCTTCGTATTGGCAGCACTATTGCACAA
AGAGAAGGCTGGTTGGCTGAACATATGTTAATTCTTGGAGTCACTTGCCCTAATGGTACA
AAGAAATATATCGCTGCTGCTTTTCCATCAGCTTGCGGTAAAACAAATCTTGCTATGATG
ACACCAACATTACCCGGATACAAAATTGAGTGTGTTGGTGATGATATTGCATGGATGAAA
TTCGATGCTCAGGGACAATTACGTGCAATTAATCCAGAAAATGGTTTCTTTGGTGTTGCT
CCAGGCACATCATTCGAAACAAATCCAAATGCTATGGAAACAGTCGTTAGAGATACAATT
TTCACAAATGTCGCTTATACCTCAGATGGTGGTGTTTTCTGGGAAGGTCTTGAAAATACA
ATCAAACCAGGCGTCACAATCACTGATTGGCTTGGTAATCCATGGGAACTTGGTGTTAGC
AAGACACCAGCAGCTCATCCAAATTCACGTTTCTGTTCACCAGCAAGTAACTGCCCAATC
ATTGATGATAAATGGGAAGATCCAGAAGGTGTCCCAATCTCAGCTATTTTATTCGGTGGT
AGACGACCAGAAGGTGTTCCACTCATTTATGAGGCTATGAATTGGCAGCATGGTGTGTTT
ATTGGTTCAGCAATGCGAAGTGAATCAACTGCCGCTGCTGAACACAAAGGAAAGGTCATT
ATGCATGACCCAATGGCAATGAGACCATTCTTTGGTTATAATTTTGGCCATTACTTGAAA
CACTGGCTTGAAATGGAAGAGCAGTGCAATAAACTCAATGGAACTATGCCAAAAGTGTTC
CACGTCAACTGGTTCCGTAAGGACAAGAATGGAAAGTTCTTATGGCCAGGATATGGCGAA
AATTCACGTGTTCTTGATTGGATCTTGAAGAGAATCGATGGTTTCGATTGCTATGATGAG
ACACCAATTGGCTATGTACCAACACCAGAGTCATTAAGACTCGACAATCTCAAGTCACAA
ATCAACTTGAAAGAACTTTTCTCAATAGAACGCGAGTTTTGGTTGAAGGAAGCTGAGCAA
ATTCAAACTTATTATGATAATCAAGTTGGAACTGATTTGCCAAAACAAATTCAACAACAA
TTGAATAATCTTAAGGCTAGAGTTGAGAAGATGCAATAG

>g2850.t1 Gene=g2850 Length=652
MPQLIEKVYTPFQKNAGHYATTTSTPSKFNNVRGYTIVNGDINSLPLKVKNFIEESALLC
QPDKIHICDGSEIENEIFTKSLLEAGTLIPLPKYQNCYLARTNPADVARVESKTFICTPH
REQAVCTPRPGIQGTLGHWISPKDYDDAIMNRFPGCMKGRTMYVVPFSMGPVGSPLSKVG
IEITDSQYVVCSMRIMTRMGSLVMDEIIKNNVDFVKCLHSVGTPESGKVAMESWPCDPDR
VIILHKPENNEIVSYGSAYGGNAILGKKCFALRIGSTIAQREGWLAEHMLILGVTCPNGT
KKYIAAAFPSACGKTNLAMMTPTLPGYKIECVGDDIAWMKFDAQGQLRAINPENGFFGVA
PGTSFETNPNAMETVVRDTIFTNVAYTSDGGVFWEGLENTIKPGVTITDWLGNPWELGVS
KTPAAHPNSRFCSPASNCPIIDDKWEDPEGVPISAILFGGRRPEGVPLIYEAMNWQHGVF
IGSAMRSESTAAAEHKGKVIMHDPMAMRPFFGYNFGHYLKHWLEMEEQCNKLNGTMPKVF
HVNWFRKDKNGKFLWPGYGENSRVLDWILKRIDGFDCYDETPIGYVPTPESLRLDNLKSQ
INLKELFSIEREFWLKEAEQIQTYYDNQVGTDLPKQIQQQLNNLKARVEKMQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g2850.t1 CDD cd00819 PEPCK_GTP 49 644 0.0
8 g2850.t1 Gene3D G3DSA:3.40.449.10 Phosphoenolpyruvate Carboxykinase 48 286 9.5E-265
10 g2850.t1 Gene3D G3DSA:2.170.8.10 Phosphoenolpyruvate Carboxykinase 87 442 9.5E-265
9 g2850.t1 Gene3D G3DSA:3.90.228.20 - 287 647 9.5E-265
5 g2850.t1 Hamap MF_00452 Phosphoenolpyruvate carboxykinase [GTP] [pckG]. 40 649 42.618111
3 g2850.t1 PANTHER PTHR11561 PHOSPHOENOLPYRUVATE CARBOXYKINASE 9 651 0.0
4 g2850.t1 PANTHER PTHR11561:SF11 PHOSPHOENOLPYRUVATE CARBOXYKINASE [GTP], MITOCHONDRIAL 9 651 0.0
11 g2850.t1 PIRSF PIRSF001348 PEP_carboxykin_GTP 27 652 3.1E-283
1 g2850.t1 Pfam PF17297 Phosphoenolpyruvate carboxykinase N-terminal domain 51 280 2.3E-95
2 g2850.t1 Pfam PF00821 Phosphoenolpyruvate carboxykinase C-terminal P-loop domain 284 648 2.5E-166
13 g2850.t1 ProSitePatterns PS00505 Phosphoenolpyruvate carboxykinase (GTP) signature. 308 316 -
7 g2850.t1 SUPERFAMILY SSF68923 PEP carboxykinase N-terminal domain 35 283 1.26E-96
6 g2850.t1 SUPERFAMILY SSF53795 PEP carboxykinase-like 284 650 3.2E-161

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.

Raw TPM values