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.t28 isoform g160.t28 1444034 1445304
chr_3 g160 g160.t28 exon g160.t28.exon1 1444034 1444756
chr_3 g160 g160.t28 cds g160.t28.CDS1 1444045 1444756
chr_3 g160 g160.t28 exon g160.t28.exon2 1444811 1444967
chr_3 g160 g160.t28 cds g160.t28.CDS2 1444811 1444967
chr_3 g160 g160.t28 exon g160.t28.exon3 1445263 1445304
chr_3 g160 g160.t28 cds g160.t28.CDS3 1445263 1445275
chr_3 g160 g160.t28 TTS g160.t28 1445733 1445733
chr_3 g160 g160.t28 TSS g160.t28 NA NA

Sequences

>g160.t28 Gene=g160 Length=922
AAGGTGTTGATATGATTTTTGCTTCATTCATTCGTGATGGACATGCATTGGATGAAATTC
GTAAAATTTTGGGTGAGGCTGGCAAGAACATTAAAATCATCTCAAAAATTGAGAATCAAC
AAGGTTTACAAAATATTGATGAAATTATTGAGAAATCTGATGGTATTATGGTTGCTCGTG
GCGATTTGGGTATTGAAATTCCACCAGAAAAGGTTTTCCTTGCTCAAAAACAAATTACTG
CTCGCTGCAATCGCGCTGGAAAACCATGTATTTGCGCTACTCAAATGTTGGAGTCAATGA
CAAACAAGCCACGTGCTACACGCGCTGAAATCTCAGACGTTGCCAATGCCGTCTTGGATG
GTGCTGATTGCACAATGTTGTCAGGAGAAACTGCTAAGGGCGAGTATCCACTCGAATGTA
TCACAACTATGGCAAAAACACAAATGGAAGCTGAAGCTGCTATTTGGCACAAGAATTTAT
TCCGTGATTTGGTTTCATTGCAACCAACACCAATTGATGCTACACACTCGATTGCTATCT
CAGCTGTTGAAGCTGCATCAAAGACTCTTGCTTCATGCATCATTTGTCTCACTACATCGG
GAAGATCGGCACATTTGATCTCCAAATATCGCCCACGATGCCCAATCATTACAGTAACAC
GCTTTGAACAAACTGCACGCCAATGTCATCTTTTCCGCGGCATTTTGCCATTGATCTATC
AAGATGCTGTTCAAGAAGACTGGTTGAAAGATGTTGATGCACGTGTCCAATTCGGTATCA
AATTTGGAAAATCTCGTGGATTTATCAAGAGTGGTGATCCAATTGTCGTTGTTACTGGCT
GGAAGTCTGGATCTGGTTTTACAAACACCTTGCGCGTTTTGAACTGTGAATAAGCACATC
ATCATCGATCGTATTAACAAAA

>g160.t28 Gene=g160 Length=293
MIFASFIRDGHALDEIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLG
IEIPPEKVFLAQKQITARCNRAGKPCICATQMLESMTNKPRATRAEISDVANAVLDGADC
TMLSGETAKGEYPLECITTMAKTQMEAEAAIWHKNLFRDLVSLQPTPIDATHSIAISAVE
AASKTLASCIICLTTSGRSAHLISKYRPRCPIITVTRFEQTARQCHLFRGILPLIYQDAV
QEDWLKDVDARVQFGIKFGKSRGFIKSGDPIVVVTGWKSGSGFTNTLRVLNCE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g160.t28 Gene3D G3DSA:3.20.20.60 - 1 147 2.2E-74
13 g160.t28 Gene3D G3DSA:3.40.1380.20 - 157 289 1.6E-48
3 g160.t28 PANTHER PTHR11817:SF100 PYRUVATE KINASE 1 293 1.3E-130
4 g160.t28 PANTHER PTHR11817 PYRUVATE KINASE 1 293 1.3E-130
6 g160.t28 PRINTS PR01050 Pyruvate kinase family signature 29 55 2.6E-61
9 g160.t28 PRINTS PR01050 Pyruvate kinase family signature 56 80 2.6E-61
8 g160.t28 PRINTS PR01050 Pyruvate kinase family signature 81 105 2.6E-61
7 g160.t28 PRINTS PR01050 Pyruvate kinase family signature 106 124 2.6E-61
5 g160.t28 PRINTS PR01050 Pyruvate kinase family signature 125 141 2.6E-61
2 g160.t28 Pfam PF00224 Pyruvate kinase, barrel domain 1 156 1.2E-78
1 g160.t28 Pfam PF02887 Pyruvate kinase, alpha/beta domain 173 290 2.4E-36
12 g160.t28 ProSitePatterns PS00110 Pyruvate kinase active site signature. 27 39 -
11 g160.t28 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 1 156 1.92E-63
10 g160.t28 SUPERFAMILY SSF52935 PK C-terminal domain-like 162 292 2.35E-43
15 g160.t28 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 1 290 2.4E-105

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