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.t1 TSS g160.t1 1442131 1442131
chr_3 g160 g160.t1 isoform g160.t1 1442304 1445275
chr_3 g160 g160.t1 exon g160.t1.exon1 1442304 1442336
chr_3 g160 g160.t1 cds g160.t1.CDS1 1442304 1442336
chr_3 g160 g160.t1 exon g160.t1.exon2 1443302 1443971
chr_3 g160 g160.t1 cds g160.t1.CDS2 1443302 1443971
chr_3 g160 g160.t1 exon g160.t1.exon3 1444037 1444756
chr_3 g160 g160.t1 cds g160.t1.CDS3 1444037 1444756
chr_3 g160 g160.t1 exon g160.t1.exon4 1444811 1444967
chr_3 g160 g160.t1 cds g160.t1.CDS4 1444811 1444967
chr_3 g160 g160.t1 exon g160.t1.exon5 1445263 1445275
chr_3 g160 g160.t1 cds g160.t1.CDS5 1445263 1445275
chr_3 g160 g160.t1 TTS g160.t1 1445733 1445733

Sequences

>g160.t1 Gene=g160 Length=1593
ATGGTTTGGATTAGTGATTTAGACGACCCAAAGATGAGCGAAAAATTGCCACAAATGAAG
GCCGCTGAAGCAATCTCTGCATTGGACCATCTCTGTCAATTGGATCCAAATGCAAAAACA
GGATTTATTCGTTTAACTGGATTGATTTGTACTATCGGACCAGCTTCACGATCACCCGAA
ATGTTGGAGAAAATGATGCATTGTGGCATGAACATTGCTCGTATGAATTTCTCACATGGA
ACTCATGAATATCATGCTGGAACTATTAAGAATGTTCGTGAGGCTGTCGATAATTATTCG
AAAAAATTGGGCTATAAGTATGCTCTTGCAATAGCATTGGATACAAAAGGTCCCGAAATC
CGTACTGGTTTGAATGCTGATAAGGGTGATATTTCATTGTCTCGTGGTGATAAGATTAAA
GTTACAACTAATAAGGAATGGTTTGAAAAGGGATCTAAGGAACAAATCTATGCTGATTAT
CCAAACATGGTTAAAGTTTTGAAAACAGGTGATCGTATCTTCATTGATGATGGTTTGATC
TCACTCGTTGTCGATTCAATTAATGGCGATACATTGGACTGCACAATTGAAAATGGTGGT
AAATTAGGCCAACAAAAGGGTGTGAATCTTCCAAATGTACCAGTTGATTTACCAGCTGTT
AGTGAGAAAGACAAGTCAGATTTACTTTTTGGTGTTGAACAAGGTGTTGATATGATTTTT
GCTTCATTCATTCGTGATGGACATGCATTGGATGAAATTCGTAAAATTTTGGGTGAGGCT
GGCAAGAACATTAAAATCATCTCAAAAATTGAGAATCAACAAGGTTTACAAAATATTGAT
GAAATTATTGAGAAATCTGATGGTATTATGGTTGCTCGTGGCGATTTGGGTATTGAAATT
CCACCAGAAAAGGTTTTCCTTGCTCAAAAACAAATTACTGCTCGCTGCAATCGCGCTGGA
AAACCATGTATTTGCGCTACTCAAATGTTGGAGTCAATGACAAACAAGCCACGTGCTACA
CGCGCTGAAATCTCAGACGTTGCCAATGCCGTCTTGGATGGTGCTGATTGCACAATGTTG
TCAGGAGAAACTGCTAAGGGCGAGTATCCACTCGAATGTATCACAACTATGGCAAAAACA
CAAATGGAAGCTGAAGCTGCTATTTGGCACAAGAATTTATTCCGTGATTTGGTTTCATTG
CAACCAACACCAATTGATGCTACACACTCGATTGCTATCTCAGCTGTTGAAGCTGCATCA
AAGACTCTTGCTTCATGCATCATTTGTCTCACTACATCGGGAAGATCGGCACATTTGATC
TCCAAATATCGCCCACGATGCCCAATCATTACAGTAACACGCTTTGAACAAACTGCACGC
CAATGTCATCTTTTCCGCGGCATTTTGCCATTGATCTATCAAGATGCTGTTCAAGAAGAC
TGGTTGAAAGATGTTGATGCACGTGTCCAATTCGGTATCAAATTTGGAAAATCTCGTGGA
TTTATCAAGAGTGGTGATCCAATTGTCGTTGTTACTGGCTGGAAGTCTGGATCTGGTTTT
ACAAACACCTTGCGCGTTTTGAACTGTGAATAA

>g160.t1 Gene=g160 Length=530
MVWISDLDDPKMSEKLPQMKAAEAISALDHLCQLDPNAKTGFIRLTGLICTIGPASRSPE
MLEKMMHCGMNIARMNFSHGTHEYHAGTIKNVREAVDNYSKKLGYKYALAIALDTKGPEI
RTGLNADKGDISLSRGDKIKVTTNKEWFEKGSKEQIYADYPNMVKVLKTGDRIFIDDGLI
SLVVDSINGDTLDCTIENGGKLGQQKGVNLPNVPVDLPAVSEKDKSDLLFGVEQGVDMIF
ASFIRDGHALDEIRKILGEAGKNIKIISKIENQQGLQNIDEIIEKSDGIMVARGDLGIEI
PPEKVFLAQKQITARCNRAGKPCICATQMLESMTNKPRATRAEISDVANAVLDGADCTML
SGETAKGEYPLECITTMAKTQMEAEAAIWHKNLFRDLVSLQPTPIDATHSIAISAVEAAS
KTLASCIICLTTSGRSAHLISKYRPRCPIITVTRFEQTARQCHLFRGILPLIYQDAVQED
WLKDVDARVQFGIKFGKSRGFIKSGDPIVVVTGWKSGSGFTNTLRVLNCE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g160.t1 CDD cd00288 Pyruvate_Kinase 43 527 0.0
15 g160.t1 Gene3D G3DSA:3.40.1380.20 - 27 526 4.7E-236
17 g160.t1 Gene3D G3DSA:3.20.20.60 - 44 384 4.7E-236
16 g160.t1 Gene3D G3DSA:2.40.33.10 - 118 218 4.7E-236
3 g160.t1 PANTHER PTHR11817:SF100 PYRUVATE KINASE 20 530 1.4E-228
4 g160.t1 PANTHER PTHR11817 PYRUVATE KINASE 20 530 1.4E-228
8 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 107 123 3.4E-76
11 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 236 250 3.4E-76
7 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 266 292 3.4E-76
9 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 293 317 3.4E-76
10 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 318 342 3.4E-76
6 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 343 361 3.4E-76
5 g160.t1 PRINTS PR01050 Pyruvate kinase family signature 362 378 3.4E-76
2 g160.t1 Pfam PF00224 Pyruvate kinase, barrel domain 44 393 2.4E-154
1 g160.t1 Pfam PF02887 Pyruvate kinase, alpha/beta domain 410 527 7.5E-36
19 g160.t1 ProSitePatterns PS00110 Pyruvate kinase active site signature. 264 276 -
14 g160.t1 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain 29 393 7.68E-101
12 g160.t1 SUPERFAMILY SSF50800 PK beta-barrel domain-like 118 217 1.71E-26
13 g160.t1 SUPERFAMILY SSF52935 PK C-terminal domain-like 399 529 8.11E-43
20 g160.t1 TIGRFAM TIGR01064 pyruv_kin: pyruvate kinase 45 527 9.0E-179

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