Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphoglycerate mutase 2.

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 g2619 g2619.t13 TTS g2619.t13 19148691 19148691
chr_3 g2619 g2619.t13 isoform g2619.t13 19148907 19149961
chr_3 g2619 g2619.t13 exon g2619.t13.exon1 19148907 19149073
chr_3 g2619 g2619.t13 cds g2619.t13.CDS1 19148907 19149073
chr_3 g2619 g2619.t13 exon g2619.t13.exon2 19149133 19149751
chr_3 g2619 g2619.t13 cds g2619.t13.CDS2 19149133 19149730
chr_3 g2619 g2619.t13 exon g2619.t13.exon3 19149932 19149961
chr_3 g2619 g2619.t13 TSS g2619.t13 19149957 19149957

Sequences

>g2619.t13 Gene=g2619 Length=816
GGCATTTCTCAAGTTTCTTTCATCGAGTAAGTGTCATCAATTGTATCAAAAATGGCAAAG
TATCAAATTGTTATGGTCAGACATGGTGAGAGTGAGTGGAATCAACTCAATTTGTTTTGC
GGTTGGTTCAATGCTGACTTAAGTGATAAGGGTCGACAAGAGGCAATTGACGCAGGAAAG
GCTATTAAAGAAGCTGGTCTCAAGTTTGATATCGCTCATACATCAGTTTTGAAGCGTGCA
AATTTGACACTCGACTCAATCCTTAAAGAATCTGGTCAAACTGGAATTCCCATTTACAAG
ACATGGCGTTTAAATGAACGTCACTATGGTGGTTTGACTGGCATGAATAAGGCTGAGACT
GCTGAAAAGTATGGTGAGGAACAAGTTAAGATCTGGCGTCGATCTTACGATATTCCACCA
CCACCAATGGAAGAAGATCATAAATATTATAAAACAATTGTCGAAGATCCAATCTATGCT
GATGGTCCCTCAAAAGATGAATTCCCTAAATTCGAGTCTTTGAAACTTACTATTCAGCGA
ACACTCCCATATTGGAATGAGACCATTATTCCTCAATTGAAGGAAGGCAAGAAAATTATT
ATTGCTGCTCACGGTAACAGCTTGAGAGGCATTGTTAAACATCTTGATCAAATGTCTGAT
GAGGCTATTATGGGTTTGAATTTGCCAACTGGAATTCCATTTGTTTATGAGCTGGATGAG
AACTTCAAACCAGTTGTCTCAATGAAATTCTTGGGTGATGAAGAAACAGTAAGAAAAGCT
ATGGAGAGCGTTGCCAACCAAGGCAAAGCTAAGTAA

>g2619.t13 Gene=g2619 Length=254
MAKYQIVMVRHGESEWNQLNLFCGWFNADLSDKGRQEAIDAGKAIKEAGLKFDIAHTSVL
KRANLTLDSILKESGQTGIPIYKTWRLNERHYGGLTGMNKAETAEKYGEEQVKIWRRSYD
IPPPPMEEDHKYYKTIVEDPIYADGPSKDEFPKFESLKLTIQRTLPYWNETIIPQLKEGK
KIIIAAHGNSLRGIVKHLDQMSDEAIMGLNLPTGIPFVYELDENFKPVVSMKFLGDEETV
RKAMESVANQGKAK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2619.t13 CDD cd07067 HP_PGM_like 5 229 2.98563E-45
6 g2619.t13 Gene3D G3DSA:3.40.50.1240 - 1 254 1.3E-84
4 g2619.t13 Hamap MF_01039 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [gpmA]. 3 234 41.557571
2 g2619.t13 PANTHER PTHR11931:SF8 PHOSPHOGLYCERATE MUTASE 2 2 254 7.2E-120
3 g2619.t13 PANTHER PTHR11931 PHOSPHOGLYCERATE MUTASE 2 254 7.2E-120
7 g2619.t13 PIRSF PIRSF000709 6PFK_fruc_bisph_Ptase 1 119 1.2E-7
8 g2619.t13 PIRSF PIRSF000709 6PFK_fruc_bisph_Ptase 170 242 59.0
1 g2619.t13 Pfam PF00300 Histidine phosphatase superfamily (branch 1) 6 129 1.4E-25
10 g2619.t13 ProSitePatterns PS00175 Phosphoglycerate mutase family phosphohistidine signature. 8 17 -
11 g2619.t13 SMART SM00855 PGAM_5 5 194 1.9E-18
5 g2619.t13 SUPERFAMILY SSF53254 Phosphoglycerate mutase-like 4 243 1.11E-72
12 g2619.t13 TIGRFAM TIGR01258 pgm_1: phosphoglycerate mutase 1 family 5 252 6.8E-112

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:0004619 phosphoglycerate mutase activity MF
GO:0006096 glycolytic process BP
GO:0003824 catalytic activity MF
GO:0016868 intramolecular transferase activity, phosphotransferases 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