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.t20 TSS g160.t20 1442131 1442131
chr_3 g160 g160.t20 isoform g160.t20 1442304 1445966
chr_3 g160 g160.t20 exon g160.t20.exon1 1442304 1442336
chr_3 g160 g160.t20 cds g160.t20.CDS1 1442304 1442336
chr_3 g160 g160.t20 exon g160.t20.exon2 1443302 1443971
chr_3 g160 g160.t20 cds g160.t20.CDS2 1443302 1443971
chr_3 g160 g160.t20 exon g160.t20.exon3 1444037 1444222
chr_3 g160 g160.t20 cds g160.t20.CDS3 1444037 1444222
chr_3 g160 g160.t20 exon g160.t20.exon4 1445765 1445966
chr_3 g160 g160.t20 cds g160.t20.CDS4 1445765 1445772
chr_3 g160 g160.t20 TTS g160.t20 NA NA

Sequences

>g160.t20 Gene=g160 Length=1091
ATGGTTTGGATTAGTGATTTAGACGACCCAAAGATGAGCGAAAAATTGCCACAAATGAAG
GCCGCTGAAGCAATCTCTGCATTGGACCATCTCTGTCAATTGGATCCAAATGCAAAAACA
GGATTTATTCGTTTAACTGGATTGATTTGTACTATCGGACCAGCTTCACGATCACCCGAA
ATGTTGGAGAAAATGATGCATTGTGGCATGAACATTGCTCGTATGAATTTCTCACATGGA
ACTCATGAATATCATGCTGGAACTATTAAGAATGTTCGTGAGGCTGTCGATAATTATTCG
AAAAAATTGGGCTATAAGTATGCTCTTGCAATAGCATTGGATACAAAAGGTCCCGAAATC
CGTACTGGTTTGAATGCTGATAAGGGTGATATTTCATTGTCTCGTGGTGATAAGATTAAA
GTTACAACTAATAAGGAATGGTTTGAAAAGGGATCTAAGGAACAAATCTATGCTGATTAT
CCAAACATGGTTAAAGTTTTGAAAACAGGTGATCGTATCTTCATTGATGATGGTTTGATC
TCACTCGTTGTCGATTCAATTAATGGCGATACATTGGACTGCACAATTGAAAATGGTGGT
AAATTAGGCCAACAAAAGGGTGTGAATCTTCCAAATGTACCAGTTGATTTACCAGCTGTT
AGTGAGAAAGACAAGTCAGATTTACTTTTTGGTGTTGAACAAGGTGTTGATATGATTTTT
GCTTCATTCATTCGTGATGGACATGCATTGGATGAAATTCGTAAAATTTTGGGTGAGGCT
GGCAAGAACATTAAAATCATCTCAAAAATTGAGAATCAACAAGGTTTACAAAATATTGAT
GAAATTATTGAGAAATCTGATGGTATTATGGTTGCTCGTGGCGATTTGGGAATATGATAC
ATTTTGATCATAAATTTGTGTGGTTGGCGAGTATTGTTTGAGATCATTTTAGTTACTTTT
TAAATAAATTGAAGACACAACTTGGTTTTCTATATGAAAAATTTAATGCTGATGATTTTA
TTCATGTAGTTTAAGAATTTATGAGACAATAAAACTAATTAATTTTGTAGATACAAGTGC
AAATTTTCTAT

>g160.t20 Gene=g160 Length=298
MVWISDLDDPKMSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPE
MLEKMMHCGMNIARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEI
RTGLNADKGDISLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLI
SLVVDSINGDTLDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIF
ASFIRDGHALDEIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g160.t20 Gene3D G3DSA:3.20.20.60 - 46 298 2.1E-94
11 g160.t20 Gene3D G3DSA:2.40.33.10 - 118 218 2.1E-94
2 g160.t20 PANTHER PTHR11817:SF100 PYRUVATE KINASE 20 298 2.0E-121
3 g160.t20 PANTHER PTHR11817 PYRUVATE KINASE 20 298 2.0E-121
5 g160.t20 PRINTS PR01050 Pyruvate kinase family signature 107 123 3.7E-31
7 g160.t20 PRINTS PR01050 Pyruvate kinase family signature 236 250 3.7E-31
4 g160.t20 PRINTS PR01050 Pyruvate kinase family signature 266 292 3.7E-31
6 g160.t20 PRINTS PR01050 Pyruvate kinase family signature 293 298 3.7E-31
1 g160.t20 Pfam PF00224 Pyruvate kinase, barrel domain 44 298 1.6E-101
10 g160.t20 ProSitePatterns PS00110 Pyruvate kinase active site signature. 264 276 -
9 g160.t20 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 29 298 2.37E-58
8 g160.t20 SUPERFAMILY SSF50800 PK beta-barrel domain-like 118 217 5.93E-27
13 g160.t20 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 45 298 2.2E-99

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. There were no conditions that were differentially expressed