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.t13 TSS g160.t13 1440552 1440552
chr_3 g160 g160.t13 isoform g160.t13 1440565 1444966
chr_3 g160 g160.t13 exon g160.t13.exon1 1440565 1440694
chr_3 g160 g160.t13 exon g160.t13.exon2 1443302 1443971
chr_3 g160 g160.t13 cds g160.t13.CDS1 1443302 1443971
chr_3 g160 g160.t13 exon g160.t13.exon3 1444037 1444756
chr_3 g160 g160.t13 cds g160.t13.CDS2 1444037 1444756
chr_3 g160 g160.t13 exon g160.t13.exon4 1444811 1444966
chr_3 g160 g160.t13 cds g160.t13.CDS3 1444811 1444965
chr_3 g160 g160.t13 TTS g160.t13 1445733 1445733

Sequences

>g160.t13 Gene=g160 Length=1676
CTCTCGATTTAGCCGGACATTAGTCAGTGAAAATTAAATTAATTTGTGATAAATACTGTT
CTGTTCATTAAAAATTGAACCAATCTGTCATTTATTCGAGTTATTTATTTAAATTAAATA
AGAAATCAAGATGAGCGAAAAATTGCCACAAATGAAGGCCGCTGAAGCAATCTCTGCATT
GGACCATCTCTGTCAATTGGATCCAAATGCAAAAACAGGATTTATTCGTTTAACTGGATT
GATTTGTACTATCGGACCAGCTTCACGATCACCCGAAATGTTGGAGAAAATGATGCATTG
TGGCATGAACATTGCTCGTATGAATTTCTCACATGGAACTCATGAATATCATGCTGGAAC
TATTAAGAATGTTCGTGAGGCTGTCGATAATTATTCGAAAAAATTGGGCTATAAGTATGC
TCTTGCAATAGCATTGGATACAAAAGGTCCCGAAATCCGTACTGGTTTGAATGCTGATAA
GGGTGATATTTCATTGTCTCGTGGTGATAAGATTAAAGTTACAACTAATAAGGAATGGTT
TGAAAAGGGATCTAAGGAACAAATCTATGCTGATTATCCAAACATGGTTAAAGTTTTGAA
AACAGGTGATCGTATCTTCATTGATGATGGTTTGATCTCACTCGTTGTCGATTCAATTAA
TGGCGATACATTGGACTGCACAATTGAAAATGGTGGTAAATTAGGCCAACAAAAGGGTGT
GAATCTTCCAAATGTACCAGTTGATTTACCAGCTGTTAGTGAGAAAGACAAGTCAGATTT
ACTTTTTGGTGTTGAACAAGGTGTTGATATGATTTTTGCTTCATTCATTCGTGATGGACA
TGCATTGGATGAAATTCGTAAAATTTTGGGTGAGGCTGGCAAGAACATTAAAATCATCTC
AAAAATTGAGAATCAACAAGGTTTACAAAATATTGATGAAATTATTGAGAAATCTGATGG
TATTATGGTTGCTCGTGGCGATTTGGGTATTGAAATTCCACCAGAAAAGGTTTTCCTTGC
TCAAAAACAAATTACTGCTCGCTGCAATCGCGCTGGAAAACCATGTATTTGCGCTACTCA
AATGTTGGAGTCAATGACAAACAAGCCACGTGCTACACGCGCTGAAATCTCAGACGTTGC
CAATGCCGTCTTGGATGGTGCTGATTGCACAATGTTGTCAGGAGAAACTGCTAAGGGCGA
GTATCCACTCGAATGTATCACAACTATGGCAAAAACACAAATGGAAGCTGAAGCTGCTAT
TTGGCACAAGAATTTATTCCGTGATTTGGTTTCATTGCAACCAACACCAATTGATGCTAC
ACACTCGATTGCTATCTCAGCTGTTGAAGCTGCATCAAAGACTCTTGCTTCATGCATCAT
TTGTCTCACTACATCGGGAAGATCGGCACATTTGATCTCCAAATATCGCCCACGATGCCC
AATCATTACAGTAACACGCTTTGAACAAACTGCACGCCAATGTCATCTTTTCCGCGGCAT
TTTGCCATTGATCTATCAAGATGCTGTTCAAGAAGACTGGTTGAAAGATGTTGATGCACG
TGTCCAATTCGGTATCAAATTTGGAAAATCTCGTGGATTTATCAAGAGTGGTGATCCAAT
TGTCGTTGTTACTGGCTGGAAGTCTGGATCTGGTTTTACAAACACCTTGCGCGTTT

>g160.t13 Gene=g160 Length=515
MSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPEMLEKMMHCGMN
IARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEIRTGLNADKGDI
SLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLISLVVDSINGDT
LDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIFASFIRDGHALD
EIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGIEIPPEKVFLAQKQ
ITARCNRAGKPCICATQMLESMTNKPRATRAEISDVANAVLDGADCTMLSGETAKGEYPL
ECITTMAKTQMEAEAAIWHKNLFRDLVSLQPTPIDATHSIAISAVEAASKTLASCIICLT
TSGRSAHLISKYRPRCPIITVTRFEQTARQCHLFRGILPLIYQDAVQEDWLKDVDARVQF
GIKFGKSRGFIKSGDPIVVVTGWKSGSGFTNTLRV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g160.t13 CDD cd00288 Pyruvate_Kinase 32 515 0.0
15 g160.t13 Gene3D G3DSA:3.40.1380.20 - 16 515 4.2E-236
17 g160.t13 Gene3D G3DSA:3.20.20.60 - 33 373 4.2E-236
16 g160.t13 Gene3D G3DSA:2.40.33.10 - 107 207 4.2E-236
3 g160.t13 PANTHER PTHR11817:SF100 PYRUVATE KINASE 10 515 7.7E-228
4 g160.t13 PANTHER PTHR11817 PYRUVATE KINASE 10 515 7.7E-228
7 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 96 112 2.7E-76
9 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 225 239 2.7E-76
11 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 255 281 2.7E-76
6 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 282 306 2.7E-76
10 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 307 331 2.7E-76
5 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 332 350 2.7E-76
8 g160.t13 PRINTS PR01050 Pyruvate kinase family signature 351 367 2.7E-76
2 g160.t13 Pfam PF00224 Pyruvate kinase, barrel domain 33 382 2.2E-154
1 g160.t13 Pfam PF02887 Pyruvate kinase, alpha/beta domain 399 515 1.7E-35
19 g160.t13 ProSitePatterns PS00110 Pyruvate kinase active site signature. 253 265 -
14 g160.t13 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 18 382 6.98E-101
12 g160.t13 SUPERFAMILY SSF50800 PK beta-barrel domain-like 107 206 1.64E-26
13 g160.t13 SUPERFAMILY SSF52935 PK C-terminal domain-like 388 515 6.28E-42
20 g160.t13 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 34 515 2.0E-178

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