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.t4 isoform g160.t4 1439399 1445966
chr_3 g160 g160.t4 exon g160.t4.exon1 1439399 1439545
chr_3 g160 g160.t4 exon g160.t4.exon2 1443302 1443959
chr_3 g160 g160.t4 cds g160.t4.CDS1 1443323 1443959
chr_3 g160 g160.t4 exon g160.t4.exon3 1444034 1444756
chr_3 g160 g160.t4 cds g160.t4.CDS2 1444034 1444756
chr_3 g160 g160.t4 exon g160.t4.exon4 1444811 1444967
chr_3 g160 g160.t4 cds g160.t4.CDS3 1444811 1444967
chr_3 g160 g160.t4 exon g160.t4.exon5 1445263 1445966
chr_3 g160 g160.t4 cds g160.t4.CDS4 1445263 1445275
chr_3 g160 g160.t4 TSS g160.t4 NA NA
chr_3 g160 g160.t4 TTS g160.t4 NA NA

Sequences

>g160.t4 Gene=g160 Length=2389
CTGATTTTCATAGAAAAGAACACCGACTAAGTGTGATTGTCAAAATAAGAATTTCATTCA
CAGTCTCATTTTGTCATTTAACCGGACAAGTTCAAATAGCAAGAGGCGAAAAGAACATTT
ATTTGCTTGTACTGTGTATTATATTGTATGAGCGAAAAATTGCCACAAATGAAGGCCGCT
GAAGCAATCTCTGCATTGGACCATCTCTGTCAATTGGATCCAAATGCAAAAACAGGATTT
ATTCGTTTAACTGGATTGATTTGTACTATCGGACCAGCTTCACGATCACCCGAAATGTTG
GAGAAAATGATGCATTGTGGCATGAACATTGCTCGTATGAATTTCTCACATGGAACTCAT
GAATATCATGCTGGAACTATTAAGAATGTTCGTGAGGCTGTCGATAATTATTCGAAAAAA
TTGGGCTATAAGTATGCTCTTGCAATAGCATTGGATACAAAAGGTCCCGAAATCCGTACT
GGTTTGAATGCTGATAAGGGTGATATTTCATTGTCTCGTGGTGATAAGATTAAAGTTACA
ACTAATAAGGAATGGTTTGAAAAGGGATCTAAGGAACAAATCTATGCTGATTATCCAAAC
ATGGTTAAAGTTTTGAAAACAGGTGATCGTATCTTCATTGATGATGGTTTGATCTCACTC
GTTGTCGATTCAATTAATGGCGATACATTGGACTGCACAATTGAAAATGGTGGTAAATTA
GGCCAACAAAAGGGTGTGAATCTTCCAAATGTACCAGTTGATTTACCAGCTGTTAGTGAG
AAAGACAAGTCAGATTTACTTTTTGAAGGTGTTGATATGATTTTTGCTTCATTCATTCGT
GATGGACATGCATTGGATGAAATTCGTAAAATTTTGGGTGAGGCTGGCAAGAACATTAAA
ATCATCTCAAAAATTGAGAATCAACAAGGTTTACAAAATATTGATGAAATTATTGAGAAA
TCTGATGGTATTATGGTTGCTCGTGGCGATTTGGGTATTGAAATTCCACCAGAAAAGGTT
TTCCTTGCTCAAAAACAAATTACTGCTCGCTGCAATCGCGCTGGAAAACCATGTATTTGC
GCTACTCAAATGTTGGAGTCAATGACAAACAAGCCACGTGCTACACGCGCTGAAATCTCA
GACGTTGCCAATGCCGTCTTGGATGGTGCTGATTGCACAATGTTGTCAGGAGAAACTGCT
AAGGGCGAGTATCCACTCGAATGTATCACAACTATGGCAAAAACACAAATGGAAGCTGAA
GCTGCTATTTGGCACAAGAATTTATTCCGTGATTTGGTTTCATTGCAACCAACACCAATT
GATGCTACACACTCGATTGCTATCTCAGCTGTTGAAGCTGCATCAAAGACTCTTGCTTCA
TGCATCATTTGTCTCACTACATCGGGAAGATCGGCACATTTGATCTCCAAATATCGCCCA
CGATGCCCAATCATTACAGTAACACGCTTTGAACAAACTGCACGCCAATGTCATCTTTTC
CGCGGCATTTTGCCATTGATCTATCAAGATGCTGTTCAAGAAGACTGGTTGAAAGATGTT
GATGCACGTGTCCAATTCGGTATCAAATTTGGAAAATCTCGTGGATTTATCAAGAGTGGT
GATCCAATTGTCGTTGTTACTGGCTGGAAGTCTGGATCTGGTTTTACAAACACCTTGCGC
GTTTTGAACTGTGAATAAGCACATCATCATCGATCGTATTAACAAAAAAATTACATCATA
TATTACTACTACCTATAGCCGATGTCTCTTCTAATCATTGAATTAATTTCTCTGTTCCTT
AAAGTGCTACATATATGTAGGACAACATCGTTAAGATAGTGAAAGAAACCTAATAATTTT
AATTAACTTCTAAAGTGTTAACAAACACAAACCACCACCGTTAATAGCAACAGCAACTAC
AGATCATACAAGAAGAACAGTAAAAATGAAAAGAAAGTGTGTAACTAATTTCTCATTAGA
ACAAAAATTCACATTAAAGCGACACAATACATACTATTTATTTCAATTTGTTCCCAATTA
TTACACACTGAAAAGTTGATCTTAAAAGTTTTATGAAAAACATAATTGTATTTATGAACA
GAAGATTCAAATTGTTCTTAATGAATAATAATAAATGATGAAATTATCAATTATTGAAAC
GATATTTTTTTGTTTTTATATTTTCAGGAATATGATACATTTTGATCATAAATTTGTGTG
GTTGGCGAGTATTGTTTGAGATCATTTTAGTTACTTTTTAAATAAATTGAAGACACAACT
TGGTTTTCTATATGAAAAATTTAATGCTGATGATTTTATTCATGTAGTTTAAGAATTTAT
GAGACAATAAAACTAATTAATTTTGTAGATACAAGTGCAAATTTTCTAT

>g160.t4 Gene=g160 Length=509
MKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPEMLEKMMHCGMNIARMNFS
HGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEIRTGLNADKGDISLSRGDK
IKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLISLVVDSINGDTLDCTIEN
GGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFEGVDMIFASFIRDGHALDEIRKILGEAG
KNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGIEIPPEKVFLAQKQITARCNRAGK
PCICATQMLESMTNKPRATRAEISDVANAVLDGADCTMLSGETAKGEYPLECITTMAKTQ
MEAEAAIWHKNLFRDLVSLQPTPIDATHSIAISAVEAASKTLASCIICLTTSGRSAHLIS
KYRPRCPIITVTRFEQTARQCHLFRGILPLIYQDAVQEDWLKDVDARVQFGIKFGKSRGF
IKSGDPIVVVTGWKSGSGFTNTLRVLNCE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g160.t4 CDD cd00288 Pyruvate_Kinase 25 506 0.0
15 g160.t4 Gene3D G3DSA:3.40.1380.20 - 9 505 1.9E-231
17 g160.t4 Gene3D G3DSA:3.20.20.60 - 26 363 1.9E-231
16 g160.t4 Gene3D G3DSA:2.40.33.10 - 100 200 1.9E-231
3 g160.t4 PANTHER PTHR11817:SF100 PYRUVATE KINASE 3 509 9.7E-222
4 g160.t4 PANTHER PTHR11817 PYRUVATE KINASE 3 509 9.7E-222
5 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 89 105 2.6E-76
6 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 215 229 2.6E-76
11 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 245 271 2.6E-76
9 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 272 296 2.6E-76
8 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 297 321 2.6E-76
7 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 322 340 2.6E-76
10 g160.t4 PRINTS PR01050 Pyruvate kinase family signature 341 357 2.6E-76
2 g160.t4 Pfam PF00224 Pyruvate kinase, barrel domain 26 372 1.2E-149
1 g160.t4 Pfam PF02887 Pyruvate kinase, alpha/beta domain 389 506 7.0E-36
19 g160.t4 ProSitePatterns PS00110 Pyruvate kinase active site signature. 243 255 -
14 g160.t4 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 11 372 2.23E-96
12 g160.t4 SUPERFAMILY SSF50800 PK beta-barrel domain-like 100 199 1.6E-26
13 g160.t4 SUPERFAMILY SSF52935 PK C-terminal domain-like 378 508 7.59E-43
20 g160.t4 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 27 506 8.3E-174

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

Pathway

  • This transcript belongs to the following pathways

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