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.t18 TSS g160.t18 1442131 1442131
chr_3 g160 g160.t18 isoform g160.t18 1442304 1444354
chr_3 g160 g160.t18 exon g160.t18.exon1 1442304 1442336
chr_3 g160 g160.t18 cds g160.t18.CDS1 1442304 1442336
chr_3 g160 g160.t18 exon g160.t18.exon2 1443302 1443971
chr_3 g160 g160.t18 cds g160.t18.CDS2 1443302 1443971
chr_3 g160 g160.t18 exon g160.t18.exon3 1444037 1444354
chr_3 g160 g160.t18 cds g160.t18.CDS3 1444037 1444353
chr_3 g160 g160.t18 TTS g160.t18 1445300 1445300

Sequences

>g160.t18 Gene=g160 Length=1021
ATGGTTTGGATTAGTGATTTAGACGACCCAAAGATGAGCGAAAAATTGCCACAAATGAAG
GCCGCTGAAGCAATCTCTGCATTGGACCATCTCTGTCAATTGGATCCAAATGCAAAAACA
GGATTTATTCGTTTAACTGGATTGATTTGTACTATCGGACCAGCTTCACGATCACCCGAA
ATGTTGGAGAAAATGATGCATTGTGGCATGAACATTGCTCGTATGAATTTCTCACATGGA
ACTCATGAATATCATGCTGGAACTATTAAGAATGTTCGTGAGGCTGTCGATAATTATTCG
AAAAAATTGGGCTATAAGTATGCTCTTGCAATAGCATTGGATACAAAAGGTCCCGAAATC
CGTACTGGTTTGAATGCTGATAAGGGTGATATTTCATTGTCTCGTGGTGATAAGATTAAA
GTTACAACTAATAAGGAATGGTTTGAAAAGGGATCTAAGGAACAAATCTATGCTGATTAT
CCAAACATGGTTAAAGTTTTGAAAACAGGTGATCGTATCTTCATTGATGATGGTTTGATC
TCACTCGTTGTCGATTCAATTAATGGCGATACATTGGACTGCACAATTGAAAATGGTGGT
AAATTAGGCCAACAAAAGGGTGTGAATCTTCCAAATGTACCAGTTGATTTACCAGCTGTT
AGTGAGAAAGACAAGTCAGATTTACTTTTTGGTGTTGAACAAGGTGTTGATATGATTTTT
GCTTCATTCATTCGTGATGGACATGCATTGGATGAAATTCGTAAAATTTTGGGTGAGGCT
GGCAAGAACATTAAAATCATCTCAAAAATTGAGAATCAACAAGGTTTACAAAATATTGAT
GAAATTATTGAGAAATCTGATGGTATTATGGTTGCTCGTGGCGATTTGGGTATTGAAATT
CCACCAGAAAAGGTTTTCCTTGCTCAAAAACAAATTACTGCTCGCTGCAATCGCGCTGGA
AAACCATGTATTTGCGCTACTCAAATGTTGGAGTCAATGACAAACAAGCCACGTGCTACA
C

>g160.t18 Gene=g160 Length=340
MVWISDLDDPKMSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPE
MLEKMMHCGMNIARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEI
RTGLNADKGDISLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLI
SLVVDSINGDTLDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIF
ASFIRDGHALDEIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGIEI
PPEKVFLAQKQITARCNRAGKPCICATQMLESMTNKPRAT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g160.t18 Gene3D G3DSA:3.20.20.60 - 46 340 3.6E-115
12 g160.t18 Gene3D G3DSA:2.40.33.10 - 119 217 3.6E-115
2 g160.t18 PANTHER PTHR11817:SF100 PYRUVATE KINASE 20 340 6.2E-150
3 g160.t18 PANTHER PTHR11817 PYRUVATE KINASE 20 340 6.2E-150
5 g160.t18 PRINTS PR01050 Pyruvate kinase family signature 107 123 8.1E-55
8 g160.t18 PRINTS PR01050 Pyruvate kinase family signature 236 250 8.1E-55
4 g160.t18 PRINTS PR01050 Pyruvate kinase family signature 266 292 8.1E-55
6 g160.t18 PRINTS PR01050 Pyruvate kinase family signature 293 317 8.1E-55
7 g160.t18 PRINTS PR01050 Pyruvate kinase family signature 318 340 8.1E-55
1 g160.t18 Pfam PF00224 Pyruvate kinase, barrel domain 44 340 2.6E-125
11 g160.t18 ProSitePatterns PS00110 Pyruvate kinase active site signature. 264 276 -
10 g160.t18 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 29 340 1.22E-77
9 g160.t18 SUPERFAMILY SSF50800 PK beta-barrel domain-like 118 217 7.85E-27
14 g160.t18 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 45 340 1.9E-121

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