Pgk1 (phosphoglycerate kinase 1) - Rat Genome Database

Name: Pgk1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Pgk1 (phosphoglycerate kinase 1) Chinchilla lanigera

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Symbol:

Pgk1

Name:

phosphoglycerate kinase 1

RGD ID:

8762354

Description:

ENCODES a protein that exhibits ADP binding (ortholog); ATP binding (ortholog); phosphoglycerate kinase activity (ortholog); INVOLVED IN canonical glycolysis (ortholog); cellular response to hypoxia (ortholog); epithelial cell differentiation (ortholog); PARTICIPATES IN gluconeogenesis pathway; glycolysis pathway; hypoxia inducible factor pathway; ASSOCIATED WITH alpha thalassemia-X-linked intellectual disability syndrome (ortholog); autistic disorder (ortholog); autosomal hemophilia A (ortholog); FOUND IN cytosol (ortholog); extracellular space (ortholog); membrane raft (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955557	1,566,534 - 1,584,799 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

alpha thalassemia-X-linked intellectual disability syndrome (ISO)

autistic disorder (ISO)

autosomal hemophilia A (ISO)

factor VIII deficiency (ISO)

Generalized Epilepsy (ISO)

genetic disease (ISO)

hemolytic anemia (ISO)

hepatocellular carcinoma (ISO)

Menkes disease (ISO)

phosphoglycerate kinase 1 deficiency (ISO)

renal cell carcinoma (ISO)

syndromic X-linked intellectual disability Lubs type (ISO)

X-linked immunodeficiency with magnesium defect, Epstein-Barr virus infection, and neoplasia (ISO)

Young Syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

canonical glycolysis (ISO)

cellular response to hypoxia (ISO)

epithelial cell differentiation (ISO)

gluconeogenesis (ISO)

glycolytic process (ISO)

negative regulation of acetyl-CoA biosynthetic process from pyruvate (ISO)

negative regulation of angiogenesis (ISO)

plasminogen activation (ISO)

Cellular Component

cytosol (ISO)

extracellular space (ISO)

membrane raft (ISO)

mitochondrial matrix (ISO)

Molecular Function

ADP binding (ISO)

ATP binding (ISO)

phosphoglycerate kinase activity (ISO)

protein binding (ISO)

protein serine/threonine kinase activity (ISO)

protein-disulfide reductase (NAD(P)H) activity (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

gluconeogenesis pathway (ISO)

glycolysis pathway (ISO)

hypoxia inducible factor pathway (ISO)

lamivudine pharmacokinetics pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species
2.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Pgk1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955557	1,566,534 - 1,584,799 (+)	NCBI	ChiLan1.0	ChiLan1.0

PGK1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	X	78,104,248 - 78,129,295 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	X	77,910,739 - 78,129,295 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	X	77,359,745 - 77,384,792 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	X	77,246,425 - 77,268,980 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	X	77,165,913 - 77,188,467	NCBI
Celera	X	77,600,747 - 77,623,405 (+)	NCBI		Celera
Cytogenetic Map	X	q21.1	NCBI
HuRef	X	70,945,945 - 70,968,603 (+)	NCBI		HuRef
CHM1_1	X	77,252,363 - 77,275,021 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	X	76,539,329 - 76,564,376 (+)	NCBI		T2T-CHM13v2.0

Pgk1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	X	105,230,706 - 105,247,305 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	X	105,230,706 - 105,247,305 (+)	Ensembl		GRCm39 Ensembl
GRCm38	X	106,187,100 - 106,203,699 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	X	106,187,100 - 106,203,699 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	X	103,382,463 - 103,399,038 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	X	102,389,843 - 102,406,418 (+)	NCBI		MGSCv36	mm8
Celera	X	93,040,533 - 93,057,028 (+)	NCBI		Celera
Cytogenetic Map	X	D	NCBI
cM Map	X	47.36	NCBI

Pgk1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	75,336,988 - 75,352,962 (+)	NCBI		GRCr8
mRatBN7.2	X	71,271,454 - 71,287,429 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	71,271,440 - 71,287,418 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	X	72,780,371 - 72,796,345 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	X	76,280,383 - 76,296,357 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	X	73,843,195 - 73,859,169 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	X	77,263,399 - 77,279,373 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	77,263,359 - 77,279,367 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	X	56,383,459 - 56,399,433 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	X	94,324,219 - 94,340,193 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	X	94,397,574 - 94,413,625 (+)	NCBI
Celera	X	72,583,654 - 72,599,628 (+)	NCBI		Celera
Cytogenetic Map	X	q22	NCBI

PGK1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	X	77,679,278 - 77,701,483 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	X	77,682,484 - 77,708,088 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	X	67,280,269 - 67,302,307 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	X	77,391,639 - 77,413,786 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	X	77,391,805 - 77,414,459 (+)	Ensembl	panpan1.1		panPan2

PGK1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	X	60,374,743 - 60,396,244 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	X	60,374,754 - 60,423,947 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	X	51,387,842 - 51,409,348 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	X	61,613,473 - 61,634,977 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	X	61,613,477 - 61,690,699 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	X	59,319,607 - 59,341,115 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	X	60,929,381 - 60,951,098 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	X	60,517,684 - 60,539,186 (+)	NCBI		UU_Cfam_GSD_1.0

Pgk1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	X	53,965,864 - 53,989,650 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936547	286,267 - 310,062 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936547	286,267 - 310,062 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PGK1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	X	62,187,434 - 62,210,705 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	X	62,187,472 - 62,210,321 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	X	71,339,754 - 71,351,768 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3
Pig Cytomap	X	q1.2	NCBI

PGK1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	X	67,072,029 - 67,093,881 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666067	14,418,994 - 14,440,951 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pgk1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624836	2,653,474 - 2,676,766 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624836	2,657,320 - 2,676,124 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005412630	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01073300	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDJ01005368	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_005412630 ⟹ XP_005412687

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955557	1,566,534 - 1,584,799 (+)	NCBI

Sequence:

show sequence

CCCGGCCGGGAAGGGGCGGTGCGATAGGCAGGGCGGCCCGGGCGGTGAGAGCTCCCTCCCGGCC
TGCGCGGTGCTCGGCATTCCGCACGCGTCCCCATCGCTCTGCAGACGCGTCGTCACCCTCTGTC
TGAGTTCCCGGCTTCTCGCCTCCGCTCTGTTACCAAAATGTCGCTTTCTAACAAGCTGACTCTG
GACAAGCTGGAAGTGAAGGGGAAGCGAGTCGTTATGAGAGTGGATTTCAATGTTCCTATGAAGA
ACAACCAGATAACCAACAACCAAAGAATCAAGGCTGCTGTCCCAAGCATCAAGTTCTGCTTGGA
CAATGGAGCCAAATCAGTTGTCCTTATGAGCCATCTGGGCCGGCCTGATGGTGTCCCAATGCCC
GACAAGTACTCCTTACAGCCGGTTGCTGTAGAACTCAAATCTCTGCTGGGCAAGGATGTTCTGT
TCTTGAAGGACTGTGTAGGCCCAGAAGTAGAGAAAGCCTGCGCCGACCCATCAGTTGGGTCTGT
CATCCTGCTGGAGAACCTCCGCTTTCATGTGGAGGAGGAGGGGAAGGGAAAAGATGCCTCTGGG
AACAAGATTAAAGCTGAGCCAGCCAAAATAGAAGCTTTCCGAGCTTCGCTTTCCAAGCTGGGGG
ATGTCTATGTCAATGACGCGTTCGGCACCGCACACCGAGCCCACAGCTCTATGGTGGGAGTCAA
TCTGCCACAGAAGGCTGGAGGATTTCTGATGAAGAAGGAGCTGAACTACTTTGCTAAGGCCTTG
GAGAACCCAGAGCGACCCTTCCTGGCCATCTTGGGCGGAGCTAAAGTTGCAGATAAGATCCAAC
TGATCAATAATATGCTGGACAAAGTCAATGAGATGATTATTGGTGGTGGAATGGCTTTTACCTT
CCTTAAGGTGCTCAACAACATGGAGATTGGAACTTCTCTGTTTGATGAAGAGGGAGCCAAGATT
GTTAAAGACCTGATGGCCAAAGCTGAGAAGAATGGTGTGAAGATTACCTTGCCTGTTGACTTTG
TCACTGCTGACAAGTTTGATGAGAATGCCAAGGTGGGCCAAGCCACTGTGGCCTCTGGCATACC
TGCTGGATGGATGGGCTTGGACTGTGGTCCTGAGAGCACCAAGAAGTATGCTGAGGCTGTTGGT
CGTGCTAAGCAGATTGTGTGGAATGGACCTGTGGGGGTATTTGAATGGGAAGCTTTTGCCCGGG
GAACCAAAGCCCTCATGGATGAGGTGGTGAAAGCCACTTCCAGGGGCTGCATCACCATCATAGG
GGGTGGAGACACTGCTACTTGCTGTGCCAAATGGAACACAGAGGATAAAGTCAGCCATGTGAGC
ACCGGAGGTGGTGCCAGTTTAGAGCTCCTAGAAGGTAAAGTCCTTCCTGGGGTGGACGCTCTCA
GCAGTGCTTAGTGCTTTCCTGCCTTTTGGTTCCTGTGCACAGCCCCTAAGACAAAATAGTATTT
TCTGCATCTCCTTGGCATTAGCTCAAACTTTCCTCCACATCAAGATTTAGCTGGTGGCCAAAGG
ACGCAGCATCAGTAACCCTTATACTACATCTCAGCTGATGTTTACTGCACCCTGGACTTGACTC
CATTCTTCAAGTTGCCATTTAAGTTTCTTAGTGACTAAATCATTGTGCATTCTAGAATGCATCT
ATAGTTGCCTGTTAAAAAAAGAAAGTGAGCTGTGTTTGAAGTAGCTTATTCTAATTGGCTTTGT
CACTGTTCACGACTCAGCATGGAAACAAAATGAAACTCCAGTTGTAGGGAGGGAAAAGTTCGTG
ACGATCTATTAAATAAAAAATAAAAGTGTTCATTGAAACTGGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005412687	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000000134
	ENSCLAP00000000134.1

RefSeq Acc Id:

XP_005412687 ⟸ XM_005412630

- UniProtKB:

A0A8C2UL96 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSLSNKLTLDKLEVKGKRVVMRVDFNVPMKNNQITNNQRIKAAVPSIKFCLDNGAKSVVLMSHL
GRPDGVPMPDKYSLQPVAVELKSLLGKDVLFLKDCVGPEVEKACADPSVGSVILLENLRFHVEE
EGKGKDASGNKIKAEPAKIEAFRASLSKLGDVYVNDAFGTAHRAHSSMVGVNLPQKAGGFLMKK
ELNYFAKALENPERPFLAILGGAKVADKIQLINNMLDKVNEMIIGGGMAFTFLKVLNNMEIGTS
LFDEEGAKIVKDLMAKAEKNGVKITLPVDFVTADKFDENAKVGQATVASGIPAGWMGLDCGPES
TKKYAEAVGRAKQIVWNGPVGVFEWEAFARGTKALMDEVVKATSRGCITIIGGGDTATCCAKWN
TEDKVSHVSTGGGASLELLEGKVLPGVDALSSA

hide sequence

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000000146	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000000161	ENTREZGENE
	ENSCLAT00000000161.1	UniProtKB/TrEMBL
Gene3D-CATH	3.40.50.1260	UniProtKB/TrEMBL
InterPro	Phosphoglycerate_kinase	UniProtKB/TrEMBL
	Phosphoglycerate_kinase_CS	UniProtKB/TrEMBL
	Phosphoglycerate_kinase_N	UniProtKB/TrEMBL
	Phosphoglycerate_kinase_sf	UniProtKB/TrEMBL
NCBI Gene	Pgk1	ENTREZGENE
PANTHER	PHOSPHOGLYCERATE KINASE 1	UniProtKB/TrEMBL
	PTHR11406	UniProtKB/TrEMBL
Pfam	PGK	UniProtKB/TrEMBL
PIRSF	Pgk	UniProtKB/TrEMBL
PRINTS	PHGLYCKINASE	UniProtKB/TrEMBL
PROSITE	PGLYCERATE_KINASE	UniProtKB/TrEMBL
Superfamily-SCOP	SSF53748	UniProtKB/TrEMBL
UniProt	A0A8C2UL96	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - PID (archival)

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