Gene loci information

Transcript annotation

  • This transcript has been annotated as Pyruvate kinase.

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 g160 g160.t23 isoform g160.t23 1443300 1444189
chr_3 g160 g160.t23 exon g160.t23.exon1 1443300 1443971
chr_3 g160 g160.t23 cds g160.t23.CDS1 1443302 1443971
chr_3 g160 g160.t23 exon g160.t23.exon2 1444037 1444189
chr_3 g160 g160.t23 cds g160.t23.CDS2 1444037 1444188
chr_3 g160 g160.t23 TSS g160.t23 NA NA
chr_3 g160 g160.t23 TTS g160.t23 NA NA

Sequences

>g160.t23 Gene=g160 Length=825
AGATGAGCGAAAAATTGCCACAAATGAAGGCCGCTGAAGCAATCTCTGCATTGGACCATC
TCTGTCAATTGGATCCAAATGCAAAAACAGGATTTATTCGTTTAACTGGATTGATTTGTA
CTATCGGACCAGCTTCACGATCACCCGAAATGTTGGAGAAAATGATGCATTGTGGCATGA
ACATTGCTCGTATGAATTTCTCACATGGAACTCATGAATATCATGCTGGAACTATTAAGA
ATGTTCGTGAGGCTGTCGATAATTATTCGAAAAAATTGGGCTATAAGTATGCTCTTGCAA
TAGCATTGGATACAAAAGGTCCCGAAATCCGTACTGGTTTGAATGCTGATAAGGGTGATA
TTTCATTGTCTCGTGGTGATAAGATTAAAGTTACAACTAATAAGGAATGGTTTGAAAAGG
GATCTAAGGAACAAATCTATGCTGATTATCCAAACATGGTTAAAGTTTTGAAAACAGGTG
ATCGTATCTTCATTGATGATGGTTTGATCTCACTCGTTGTCGATTCAATTAATGGCGATA
CATTGGACTGCACAATTGAAAATGGTGGTAAATTAGGCCAACAAAAGGGTGTGAATCTTC
CAAATGTACCAGTTGATTTACCAGCTGTTAGTGAGAAAGACAAGTCAGATTTACTTTTTG
GTGTTGAACAAGGTGTTGATATGATTTTTGCTTCATTCATTCGTGATGGACATGCATTGG
ATGAAATTCGTAAAATTTTGGGTGAGGCTGGCAAGAACATTAAAATCATCTCAAAAATTG
AGAATCAACAAGGTTTACAAAATATTGATGAAATTATTGAGAAAT

>g160.t23 Gene=g160 Length=274
MSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPEMLEKMMHCGMN
IARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEIRTGLNADKGDI
SLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLISLVVDSINGDT
LDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIFASFIRDGHALD
EIRKILGEAGKNIKIISKIENQQGLQNIDEIIEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g160.t23 Gene3D G3DSA:3.20.20.60 - 34 172 8.9E-31
10 g160.t23 Gene3D G3DSA:3.20.20.60 - 173 274 3.6E-31
2 g160.t23 PANTHER PTHR11817:SF100 PYRUVATE KINASE 10 273 1.8E-111
3 g160.t23 PANTHER PTHR11817 PYRUVATE KINASE 10 273 1.8E-111
5 g160.t23 PRINTS PR01050 Pyruvate kinase family signature 96 112 3.1E-21
6 g160.t23 PRINTS PR01050 Pyruvate kinase family signature 225 239 3.1E-21
4 g160.t23 PRINTS PR01050 Pyruvate kinase family signature 255 274 3.1E-21
1 g160.t23 Pfam PF00224 Pyruvate kinase, barrel domain 33 273 1.3E-91
9 g160.t23 ProSitePatterns PS00110 Pyruvate kinase active site signature. 253 265 -
8 g160.t23 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 18 273 6.28E-50
7 g160.t23 SUPERFAMILY SSF50800 PK beta-barrel domain-like 107 206 5.06E-27

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:0030955 potassium ion binding MF
GO:0000287 magnesium ion binding MF
GO:0004743 pyruvate kinase activity MF
GO:0006096 glycolytic process BP
GO:0003824 catalytic activity 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.

Raw TPM values