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.t5 TSS g160.t5 1439458 1439458
chr_3 g160 g160.t5 isoform g160.t5 1439671 1444058
chr_3 g160 g160.t5 exon g160.t5.exon1 1439671 1439956
chr_3 g160 g160.t5 exon g160.t5.exon2 1443302 1443971
chr_3 g160 g160.t5 cds g160.t5.CDS1 1443302 1443971
chr_3 g160 g160.t5 exon g160.t5.exon3 1444037 1444058
chr_3 g160 g160.t5 cds g160.t5.CDS2 1444037 1444056
chr_3 g160 g160.t5 TTS g160.t5 NA NA

Sequences

>g160.t5 Gene=g160 Length=978
TAAGAATCATACGATTTTCGAGAAATCAAAACATCAAATGATTAAAATAACAATTAAACA
AAGATTCAAATAATTTTTTATTCCGCTGCGCTTTTATTAAATTCATTTTTCTGCAACACG
TTGTGTATTTTAAATCGTGAAAAGTTTTCTGCCATTTTTCGCCAAATTAGTGATATAAAT
TTTAAATTAAATTATTAAGTAAAGATAAGATTTCTAAGAAATCGATTCATTTAAGTTTAA
AGTTGACAAAAGGTTTCATAATAGAATTTCAACAACTTTATTCAAGATGAGCGAAAAATT
GCCACAAATGAAGGCCGCTGAAGCAATCTCTGCATTGGACCATCTCTGTCAATTGGATCC
AAATGCAAAAACAGGATTTATTCGTTTAACTGGATTGATTTGTACTATCGGACCAGCTTC
ACGATCACCCGAAATGTTGGAGAAAATGATGCATTGTGGCATGAACATTGCTCGTATGAA
TTTCTCACATGGAACTCATGAATATCATGCTGGAACTATTAAGAATGTTCGTGAGGCTGT
CGATAATTATTCGAAAAAATTGGGCTATAAGTATGCTCTTGCAATAGCATTGGATACAAA
AGGTCCCGAAATCCGTACTGGTTTGAATGCTGATAAGGGTGATATTTCATTGTCTCGTGG
TGATAAGATTAAAGTTACAACTAATAAGGAATGGTTTGAAAAGGGATCTAAGGAACAAAT
CTATGCTGATTATCCAAACATGGTTAAAGTTTTGAAAACAGGTGATCGTATCTTCATTGA
TGATGGTTTGATCTCACTCGTTGTCGATTCAATTAATGGCGATACATTGGACTGCACAAT
TGAAAATGGTGGTAAATTAGGCCAACAAAAGGGTGTGAATCTTCCAAATGTACCAGTTGA
TTTACCAGCTGTTAGTGAGAAAGACAAGTCAGATTTACTTTTTGGTGTTGAACAAGGTGT
TGATATGATTTTTGCTTC

>g160.t5 Gene=g160 Length=230
MSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPEMLEKMMHCGMN
IARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEIRTGLNADKGDI
SLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLISLVVDSINGDT
LDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIFA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g160.t5 Gene3D G3DSA:3.40.1380.20 - 16 32 0e+00
10 g160.t5 Gene3D G3DSA:3.20.20.60 - 33 230 0e+00
9 g160.t5 Gene3D G3DSA:2.40.33.10 - 107 207 0e+00
2 g160.t5 PANTHER PTHR11817:SF100 PYRUVATE KINASE 10 230 0e+00
3 g160.t5 PANTHER PTHR11817 PYRUVATE KINASE 10 230 0e+00
4 g160.t5 PRINTS PR01050 Pyruvate kinase family signature 96 112 5e-07
5 g160.t5 PRINTS PR01050 Pyruvate kinase family signature 225 230 5e-07
1 g160.t5 Pfam PF00224 Pyruvate kinase, barrel domain 33 230 0e+00
7 g160.t5 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 18 230 0e+00
6 g160.t5 SUPERFAMILY SSF50800 PK beta-barrel domain-like 107 206 0e+00

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