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.t9 TTS g2619.t9 19148691 19148691
chr_3 g2619 g2619.t9 isoform g2619.t9 19148907 19149730
chr_3 g2619 g2619.t9 exon g2619.t9.exon1 19148907 19149059
chr_3 g2619 g2619.t9 cds g2619.t9.CDS1 19149013 19149059
chr_3 g2619 g2619.t9 exon g2619.t9.exon2 19149169 19149730
chr_3 g2619 g2619.t9 cds g2619.t9.CDS2 19149169 19149730
chr_3 g2619 g2619.t9 TSS g2619.t9 19149957 19149957

Sequences

>g2619.t9 Gene=g2619 Length=715
ATGGCAAAGTATCAAATTGTTATGGTCAGACATGGTGAGAGTGAGTGGAATCAACTCAAT
TTGTTTTGCGGTTGGTTCAATGCTGACTTAAGTGATAAGGGTCGACAAGAGGCAATTGAC
GCAGGAAAGGCTATTAAAGAAGCTGGTCTCAAGTTTGATATCGCTCATACATCAGTTTTG
AAGCGTGCAAATTTGACACTCGACTCAATCCTTAAAGAATCTGGTCAAACTGGAATTCCC
ATTTACAAGACATGGCGTTTAAATGAACGTCACTATGGTGGTTTGACTGGCATGAATAAG
GCTGAGACTGCTGAAAAGTATGGTGAGGAACAAGTTAAGATCTGGCGTCGATCTTACGAT
ATTCCACCACCACCAATGGAAGAAGATCATAAATATTATAAAACAATTGTCGAAGATCCA
ATCTATGCTGATGGTCCCTCAAAAGATGAATTCCCTAAATTCGAGTCTTTGAAACTTACT
ATTCAGCGAACACTCCCATATTGGAATGAGACCATTATTCCTCAATTGAAGGAAGGCAAG
AAAATTATTATTGCTGCTCACGGCTATTATGGGTTTGAATTTGCCAACTGGAATTCCATT
TGTTTATGAGCTGGATGAGAACTTCAAACCAGTTGTCTCAATGAAATTCTTGGGTGATGA
AGAAACAGTAAGAAAAGCTATGGAGAGCGTTGCCAACCAAGGCAAAGCTAAGTAA

>g2619.t9 Gene=g2619 Length=202
MAKYQIVMVRHGESEWNQLNLFCGWFNADLSDKGRQEAIDAGKAIKEAGLKFDIAHTSVL
KRANLTLDSILKESGQTGIPIYKTWRLNERHYGGLTGMNKAETAEKYGEEQVKIWRRSYD
IPPPPMEEDHKYYKTIVEDPIYADGPSKDEFPKFESLKLTIQRTLPYWNETIIPQLKEGK
KIIIAAHGYYGFEFANWNSICL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g2619.t9 CDD cd07067 HP_PGM_like 5 89 4.31014E-32
5 g2619.t9 Gene3D G3DSA:3.40.50.1240 - 1 191 2.9E-63
2 g2619.t9 PANTHER PTHR11931:SF8 PHOSPHOGLYCERATE MUTASE 2 2 188 1.1E-80
3 g2619.t9 PANTHER PTHR11931 PHOSPHOGLYCERATE MUTASE 2 188 1.1E-80
1 g2619.t9 Pfam PF00300 Histidine phosphatase superfamily (branch 1) 6 129 7.4E-26
7 g2619.t9 ProSitePatterns PS00175 Phosphoglycerate mutase family phosphohistidine signature. 8 17 -
8 g2619.t9 SMART SM00855 PGAM_5 5 194 4.9E-14
4 g2619.t9 SUPERFAMILY SSF53254 Phosphoglycerate mutase-like 4 190 3.88E-59
9 g2619.t9 TIGRFAM TIGR01258 pgm_1: phosphoglycerate mutase 1 family 5 188 2.2E-81

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.

Raw TPM values