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.t20 TTS g2619.t20 19148691 19148691
chr_3 g2619 g2619.t20 isoform g2619.t20 19148907 19149961
chr_3 g2619 g2619.t20 exon g2619.t20.exon1 19148907 19149751
chr_3 g2619 g2619.t20 cds g2619.t20.CDS1 19149119 19149730
chr_3 g2619 g2619.t20 exon g2619.t20.exon2 19149932 19149961
chr_3 g2619 g2619.t20 TSS g2619.t20 19149957 19149957

Sequences

>g2619.t20 Gene=g2619 Length=875
GGCATTTCTCAAGTTTCTTTCATCGAGTAAGTGTCATCAATTGTATCAAAAATGGCAAAG
TATCAAATTGTTATGGTCAGACATGGTGAGAGTGAGTGGAATCAACTCAATTTGTTTTGC
GGTTGGTTCAATGCTGACTTAAGTGATAAGGGTCGACAAGAGGCAATTGACGCAGGAAAG
GCTATTAAAGAAGCTGGTCTCAAGTTTGATATCGCTCATACATCAGTTTTGAAGCGTGCA
AATTTGACACTCGACTCAATCCTTAAAGAATCTGGTCAAACTGGAATTCCCATTTACAAG
ACATGGCGTTTAAATGAACGTCACTATGGTGGTTTGACTGGCATGAATAAGGCTGAGACT
GCTGAAAAGTATGGTGAGGAACAAGTTAAGATCTGGCGTCGATCTTACGATATTCCACCA
CCACCAATGGAAGAAGATCATAAATATTATAAAACAATTGTCGAAGATCCAATCTATGCT
GATGGTCCCTCAAAAGATGAATTCCCTAAATTCGAGTCTTTGAAACTTACTATTCAGCGA
ACACTCCCATATTGGAATGAGACCATTATTCCTCAATTGAAGGAAGGCAAGAAAATTATT
ATTGCTGCTCACGGTAACAGCTTGAGAGGCATTGTTAAACATCTTGATCGTAAGTTTTAT
TAAATTTTCTTTGTTTTCTAAAACCAAGGACTTTTTTTCTTTCAAAAGAAATGTCTGATG
AGGCTATTATGGGTTTGAATTTGCCAACTGGAATTCCATTTGTTTATGAGCTGGATGAGA
ACTTCAAACCAGTTGTCTCAATGAAATTCTTGGGTGATGAAGAAACAGTAAGAAAAGCTA
TGGAGAGCGTTGCCAACCAAGGCAAAGCTAAGTAA

>g2619.t20 Gene=g2619 Length=203
MAKYQIVMVRHGESEWNQLNLFCGWFNADLSDKGRQEAIDAGKAIKEAGLKFDIAHTSVL
KRANLTLDSILKESGQTGIPIYKTWRLNERHYGGLTGMNKAETAEKYGEEQVKIWRRSYD
IPPPPMEEDHKYYKTIVEDPIYADGPSKDEFPKFESLKLTIQRTLPYWNETIIPQLKEGK
KIIIAAHGNSLRGIVKHLDRKFY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g2619.t20 CDD cd07067 HP_PGM_like 5 199 9.1119E-35
6 g2619.t20 Gene3D G3DSA:3.40.50.1240 - 1 202 5.4E-68
4 g2619.t20 Hamap MF_01039 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase [gpmA]. 3 203 33.038422
2 g2619.t20 PANTHER PTHR11931:SF8 PHOSPHOGLYCERATE MUTASE 2 2 199 1.4E-88
3 g2619.t20 PANTHER PTHR11931 PHOSPHOGLYCERATE MUTASE 2 199 1.4E-88
1 g2619.t20 Pfam PF00300 Histidine phosphatase superfamily (branch 1) 6 129 7.5E-26
8 g2619.t20 ProSitePatterns PS00175 Phosphoglycerate mutase family phosphohistidine signature. 8 17 -
9 g2619.t20 SMART SM00855 PGAM_5 5 194 1.9E-18
5 g2619.t20 SUPERFAMILY SSF53254 Phosphoglycerate mutase-like 4 199 1.8E-62
10 g2619.t20 TIGRFAM TIGR01258 pgm_1: phosphoglycerate mutase 1 family 5 199 1.2E-88

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

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed