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.t24 isoform g160.t24 1443300 1445304
chr_3 g160 g160.t24 exon g160.t24.exon1 1443300 1443971
chr_3 g160 g160.t24 cds g160.t24.CDS1 1443302 1443971
chr_3 g160 g160.t24 exon g160.t24.exon2 1444037 1444467
chr_3 g160 g160.t24 cds g160.t24.CDS2 1444037 1444467
chr_3 g160 g160.t24 exon g160.t24.exon3 1444538 1444756
chr_3 g160 g160.t24 cds g160.t24.CDS3 1444538 1444651
chr_3 g160 g160.t24 exon g160.t24.exon4 1444811 1444967
chr_3 g160 g160.t24 exon g160.t24.exon5 1445263 1445304
chr_3 g160 g160.t24 TTS g160.t24 1445733 1445733
chr_3 g160 g160.t24 TSS g160.t24 NA NA

Sequences

>g160.t24 Gene=g160 Length=1521
AGATGAGCGAAAAATTGCCACAAATGAAGGCCGCTGAAGCAATCTCTGCATTGGACCATC
TCTGTCAATTGGATCCAAATGCAAAAACAGGATTTATTCGTTTAACTGGATTGATTTGTA
CTATCGGACCAGCTTCACGATCACCCGAAATGTTGGAGAAAATGATGCATTGTGGCATGA
ACATTGCTCGTATGAATTTCTCACATGGAACTCATGAATATCATGCTGGAACTATTAAGA
ATGTTCGTGAGGCTGTCGATAATTATTCGAAAAAATTGGGCTATAAGTATGCTCTTGCAA
TAGCATTGGATACAAAAGGTCCCGAAATCCGTACTGGTTTGAATGCTGATAAGGGTGATA
TTTCATTGTCTCGTGGTGATAAGATTAAAGTTACAACTAATAAGGAATGGTTTGAAAAGG
GATCTAAGGAACAAATCTATGCTGATTATCCAAACATGGTTAAAGTTTTGAAAACAGGTG
ATCGTATCTTCATTGATGATGGTTTGATCTCACTCGTTGTCGATTCAATTAATGGCGATA
CATTGGACTGCACAATTGAAAATGGTGGTAAATTAGGCCAACAAAAGGGTGTGAATCTTC
CAAATGTACCAGTTGATTTACCAGCTGTTAGTGAGAAAGACAAGTCAGATTTACTTTTTG
GTGTTGAACAAGGTGTTGATATGATTTTTGCTTCATTCATTCGTGATGGACATGCATTGG
ATGAAATTCGTAAAATTTTGGGTGAGGCTGGCAAGAACATTAAAATCATCTCAAAAATTG
AGAATCAACAAGGTTTACAAAATATTGATGAAATTATTGAGAAATCTGATGGTATTATGG
TTGCTCGTGGCGATTTGGGTATTGAAATTCCACCAGAAAAGGTTTTCCTTGCTCAAAAAC
AAATTACTGCTCGCTGCAATCGCGCTGGAAAACCATGTATTTGCGCTACTCAAATGTTGG
AGTCAATGACAAACAAGCCACGTGCTACACGCGCTGAAATCTCAGACGTTGCCAATGCCG
TCTTGGATGGTGCTGATTGCACAATGTTGTCAGGAGAAACTGCTAAGGGCGAGTATCCAC
TCGAATGTATCACAACTATGGCACAACACCAATTGATGCTACACACTCGATTGCTATCTC
AGCTGTTGAAGCTGCATCAAAGACTCTTGCTTCATGCATCATTTGTCTCACTACATCGGG
AAGATCGGCACATTTGATCTCCAAATATCGCCCACGATGCCCAATCATTACAGTAACACG
CTTTGAACAAACTGCACGCCAATGTCATCTTTTCCGCGGCATTTTGCCATTGATCTATCA
AGATGCTGTTCAAGAAGACTGGTTGAAAGATGTTGATGCACGTGTCCAATTCGGTATCAA
ATTTGGAAAATCTCGTGGATTTATCAAGAGTGGTGATCCAATTGTCGTTGTTACTGGCTG
GAAGTCTGGATCTGGTTTTACAAACACCTTGCGCGTTTTGAACTGTGAATAAGCACATCA
TCATCGATCGTATTAACAAAA

>g160.t24 Gene=g160 Length=404
MSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPEMLEKMMHCGMN
IARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEIRTGLNADKGDI
SLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLISLVVDSINGDT
LDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIFASFIRDGHALD
EIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGIEIPPEKVFLAQKQ
ITARCNRAGKPCICATQMLESMTNKPRATRAEISDVANAVLDGADCTMLSGETAKGEYPL
ECITTMAQHQLMLHTRLLSQLLKLHQRLLLHASFVSLHREDRHI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g160.t24 Gene3D G3DSA:3.20.20.60 - 35 368 4.2E-140
14 g160.t24 Gene3D G3DSA:2.40.33.10 - 108 206 4.2E-140
2 g160.t24 PANTHER PTHR11817:SF100 PYRUVATE KINASE 10 366 7.0E-175
3 g160.t24 PANTHER PTHR11817 PYRUVATE KINASE 10 366 7.0E-175
6 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 96 112 7.4E-77
8 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 225 239 7.4E-77
10 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 255 281 7.4E-77
5 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 282 306 7.4E-77
9 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 307 331 7.4E-77
4 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 332 350 7.4E-77
7 g160.t24 PRINTS PR01050 Pyruvate kinase family signature 351 367 7.4E-77
1 g160.t24 Pfam PF00224 Pyruvate kinase, barrel domain 33 372 9.3E-152
13 g160.t24 ProSitePatterns PS00110 Pyruvate kinase active site signature. 253 265 -
12 g160.t24 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 18 368 2.09E-98
11 g160.t24 SUPERFAMILY SSF50800 PK beta-barrel domain-like 107 206 1.08E-26
16 g160.t24 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 34 368 5.8E-148

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