Pgc Gene Detail

Summary

• Symbol
  Pgc
• Name
  progastricsin (pepsinogen C)
• Synonyms
  2210410L06Rik, Upg-1, Upg1

• Feature Type
  protein coding gene
• IDs
  MGI:98909
  NCBI Gene: 109820
• Alliance
  gene page
• Transcription Start Sites
  48 TSS
• Candidate for QTL
  1 QTL

Location &
Maps

• Sequence Map
  Chr17:48037767-48045403 bp, + strand

  From NCBI annotation of GRCm39
  

• View this region in JBrowse
  

• Genome Browsers
  Ensembl | UCSC | NCBI

• Genetic Map
  Chromosome 17, 23.98 cM, cytoband C
• Mapping Data
  29 experiments

Strain
Comparison

• SNPs within 2kb
  308 from dbSNP Build 142
• Strain Annotations
  18

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_98909	protein coding gene	Chr17:48037767-48045407 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0023856	protein coding gene	Chr17:48939553-48948726 (+)
A/J	MGP_AJ_G0023816	protein coding gene	Chr17:47679183-47686859 (+)
AKR/J	MGP_AKRJ_G0023785	protein coding gene	Chr17:48098060-48109085 (+)
BALB/cJ	MGP_BALBcJ_G0023818	protein coding gene	Chr17:47593127-47601545 (+)
C3H/HeJ	MGP_C3HHeJ_G0023581	protein coding gene	Chr17:48826613-48836202 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0024262	protein coding gene	Chr17:50981672-50992572 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0021711	protein coding gene	Chr17:44437070-44444588 (+)
CAST/EiJ	MGP_CASTEiJ_G0023063	protein coding gene	Chr17:48939247-48948790 (+)
CBA/J	MGP_CBAJ_G0023558	protein coding gene	Chr17:52836050-52846787 (+)
DBA/2J	MGP_DBA2J_G0023686	protein coding gene	Chr17:46435141-46443006 (+)
FVB/NJ	MGP_FVBNJ_G0023652	protein coding gene	Chr17:46092924-46100384 (+)
LP/J	MGP_LPJ_G0023766	protein coding gene	Chr17:49595145-49603612 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0023680	protein coding gene	Chr17:52311354-52321596 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0024307	protein coding gene	Chr17:48451568-48459083 (+)
PWK/PhJ	MGP_PWKPhJ_G0022808	protein coding gene	Chr17:45810365-45818867 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0022623	protein coding gene	Chr17:45342798-45350540 (+)
WSB/EiJ	MGP_WSBEiJ_G0023128	protein coding gene	Chr17:49038125-49048335 (+)

Homology

• Human Ortholog
  PGC, progastricsin

• Vertebrate Orthologs
  2

Vertebrate Orthology Source

Alliance of Genome Resources

• Human Ortholog
  PGC, progastricsin
  
• Synonyms
  PEPC, PGII
• Links
  HGNC:8890

  NCBI Gene ID: 5225

  neXtProt AC: NX_P20142

  UniProt: P20142

  
  
• Chr Location
  6p21.1; chr6:41736711-41754109 (-)  GRCh38

---

• MGI Vertebrate Homology
  Pgc stringent orthology
  1 human;1 mouse;1 rat
  
• HCOP
  vertebrate homology predictions: PGC
• Gene Tree
  Pgc
  

Mutations,
Alleles, and
Phenotypes

• Phenotype Summary
  13 phenotypes from 2 alleles in 2 genetic backgrounds
  13 phenotype references
  

• All Mutations and Alleles
  20
• Endonuclease-mediated
  4
• Gene trapped
  12
• Targeted
  4
• Incidental Mutations
  Mutagenetix , APF
• Find Mice (IMSR)
  21 strains or lines available
• Comparison Matrix
  Gene Expression + Phenotype
• Recombinase Activity
  Comparison Matrix Gene Expression + Recombinase Activity

Mice homozygous for a null allele exhibit premature death with decreased erythrocyte cell number, decreased hemoglobin content, decreased circulating alkaline phosphatase level, increased regenerative and globoid dysplasia, and decreased incidence of MNU-induced.

Gene Ontology
(GO)
Classifications

• All GO Annotations
  11
• GO References
  4

Expression

• Assay Results
  759
• Tissues
  18
• cDNA Data
  89
• Literature Summary
  12

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

• Other Mouse Links
  Allen Institute
  GEO
  Expression Atlas

Sequences &
Gene Models

• All Sequences
  33
• RefSeq
  2
• UniProt
  3
• CCDS
  CCDS28855.1

• Ensembl
  ENSMUSG00000023987 (Evidence)
• NCBI Gene
  109820

Representative Sequences			Length	Strain/Species
genomic	109820	NCBI Gene Model | MGI Sequence Detail	7637	C57BL/6J
transcript	NM_025973	RefSeq | MGI Sequence Detail	1384	ZRU/MplStud
polypeptide	Q9D7R7	UniProt | EBI | MGI Sequence Detail	392	Not Applicable

Protein
Information

• UniProt
  3 Sequences
• Protein Ontology
  PR:000012602 gastricsin
  (term hierarchy)
• EC
  3.4.23.3
• InterPro Domains
  IPR001461 Aspartic peptidase A1 family
  IPR001969 Aspartic peptidase, active site
  IPR021109 Aspartic peptidase domain superfamily
  IPR012848 Aspartic peptidase, N-terminal
  IPR033121 Peptidase family A1 domain

Molecular
Reagents

• All nucleic 90

  cDNA 89

  Primer pair 1

  
  

  Microarray probesets 2

Other
Accession IDs

MGD-MRK-15361, MGD-MRK-15363, MGI:1914363

References

• Summaries
  All 70

  Developmental Gene Expression 12

  Gene Ontology 4

  Phenotypes 13
• Earliest
  J:6576 Szymura JM, et al., Linkage of a gene controlling urinary pepsinogen with the major histocompatibility complex of the mouse. Immunogenetics. 1981;13(3):267-71
• Latest
  J:338079 E Y, et al., The relationship between pepsinogen C and gastric carcinogenesis: a transgene and population study. BMC Cancer. 2023 Jun 8;23(1):520

TSS for Pgc:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr145003	Chr17:48037759-48037773 (+)	-1 bp
Tssr145004	Chr17:48039657-48039667 (+)	1,895 bp
Tssr5147	Chr17:48039675-48039676 (+)	1,909 bp
Tssr145005	Chr17:48039685-48039688 (+)	1,920 bp
Tssr145006	Chr17:48039694-48039717 (+)	1,939 bp
Tssr145007	Chr17:48039721-48039749 (+)	1,968 bp
Tssr145008	Chr17:48039755-48039770 (+)	1,996 bp
Tssr145009	Chr17:48039772-48039798 (+)	2,018 bp
Tssr145010	Chr17:48040175-48040180 (+)	2,411 bp
Tssr145011	Chr17:48040188-48040199 (+)	2,427 bp
Tssr145012	Chr17:48040200-48040216 (+)	2,441 bp
Tssr145013	Chr17:48040219-48040268 (+)	2,477 bp
Tssr145014	Chr17:48041005-48041062 (+)	3,267 bp
Tssr145015	Chr17:48041067-48041077 (+)	3,305 bp
Tssr145016	Chr17:48041078-48041081 (+)	3,313 bp
Tssr145017	Chr17:48041523-48041530 (+)	3,760 bp
Tssr145018	Chr17:48041535-48041536 (+)	3,769 bp
Tssr145019	Chr17:48041566-48041567 (+)	3,800 bp
Tssr145020	Chr17:48041587-48041596 (+)	3,825 bp
Tssr145021	Chr17:48041613-48041626 (+)	3,853 bp
Tssr145022	Chr17:48041645-48041653 (+)	3,882 bp
Tssr145023	Chr17:48041672-48041691 (+)	3,915 bp
Tssr145024	Chr17:48041783-48041793 (+)	4,021 bp
Tssr145025	Chr17:48042127-48042156 (+)	4,375 bp
Tssr145026	Chr17:48042383-48042396 (+)	4,623 bp
Tssr5149	Chr17:48042408-48042413 (+)	4,644 bp
Tssr145027	Chr17:48043316-48043337 (+)	5,560 bp
Tssr145028	Chr17:48043344-48043378 (+)	5,594 bp
Tssr145029	Chr17:48043385-48043395 (+)	5,623 bp
Tssr145030	Chr17:48043879-48043890 (+)	6,118 bp
Tssr145031	Chr17:48043895-48043898 (+)	6,130 bp
Tssr145032	Chr17:48043903-48043983 (+)	6,176 bp
Tssr145033	Chr17:48043984-48043985 (+)	6,218 bp
Tssr145034	Chr17:48043986-48043996 (+)	6,224 bp
Tssr145035	Chr17:48044676-48044680 (+)	6,911 bp
Tssr145036	Chr17:48044684-48044709 (+)	6,930 bp
Tssr145037	Chr17:48044728-48044736 (+)	6,965 bp
Tssr145038	Chr17:48044738-48044755 (+)	6,980 bp
Tssr145039	Chr17:48045103-48045126 (+)	7,348 bp
Tssr145040	Chr17:48045127-48045160 (+)	7,377 bp
Tssr145041	Chr17:48045164-48045172 (+)	7,401 bp
Tssr145042	Chr17:48045182-48045223 (+)	7,436 bp
Tssr145043	Chr17:48045237-48045249 (+)	7,476 bp
Tssr145044	Chr17:48045254-48045262 (+)	7,491 bp
Tssr145045	Chr17:48045264-48045279 (+)	7,505 bp
Tssr145046	Chr17:48045283-48045330 (+)	7,540 bp
Tssr145047	Chr17:48045331-48045346 (+)	7,572 bp
Tssr145048	Chr17:48045363-48045366 (+)	7,598 bp

Pgc is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Obwq4	Chr17, 29.73 cM		J:133501	SNP analysis, mRNA microarray analysis and protein expression difference analysis were used to narrow the QTL intervals of 9 previously identified QTLs for HDL cholesterol (Hdlq1, Hdlq20, Hdlq24), gallstone susceptibility (Lith17, Lith19, Lith21) and obesity (Obwq3, Obwq4, Obwq5). This methodology identified a manageable list of potential candidate genes for each QTL. A panel of 130,000 SNPs for SM/J and NZB/BlNJ reduced the QTL intervals by 40%-72%. Liver mRNA analysis identified 10 genes differentially expressed between SM/J and NZB/BlNJ strains and this finding was confirmed using TaqMan RT-PCR assays. Mass spectrometry analysis of liver proteins identified 45 proteins displaying differential expression between SM/J andNZB/BlNJ. On mouse Chromosome 1, Apoa2 (92.6 cM), Fh1, and Hsd11b1 were identified as potential candidate genes for Hdlq20 at 96 cM. Apoa2 was identified based on protein expression and SNP coding sequence differences. Apoa2 displays up-regulation in NZB/BlNJ liver proteins comparedto SM/J. Fh1 displays gene coding sequence differences and decreased protein expression in NZB/BlNJ livers compared to SM/J. Hsd11b1 was identified based on decreased protein expression in NZB/BlNJ. On mouse Chromosome 5, Acads (65 cM) and Scarb1 (68 cM)were identified as potential candidate genes for Hdlq1 (70 cM) and Lith17 (60 cM). Acads was identified on the basis of decreased protein expression in NZB/BlNJ livers compared to SM/J, as well as coding sequence differences. Scarb1 displays coding regionsequence differences and decreased liver mRNA expression in NZB/BlNJ. Scarb1 is located more closely to Hdlq1 and decreased Scarb1 mRNA expression was observed for this QTL. On mouse Chromosome 6, Pparg (52.7 cM), Rassf4 and Adipor2 (60.7 cM) were identified as potential candidate genes for Hdlq24 (66 cM) and Obwq3 (42 cM). Pparg displays coding sequences differences between NZB/BlNJ and SM/J while Rassf4 displays decreased liver mRNA expression in NZB/BlNJ animals. Adipor2 displays increased liver mRNAexpression in NZB/BlNJ and gene coding sequence differences. Ndufa9 was identified as a QTL for Hdlq24 on the basis of decreased liver protein expression in NZB/BlNJ and coding sequence differences. On mouse Chromosome 8,Slc10a2 (2 cM) was identifiedasa potential candidate gene for Lith19 (0 cM) on the basis of increased liver mRNA expression in NZB/BlNJ animals compared to SM/J. On mouse Chromosome 10, Ctgf (17 cM) was identified as a potential candidate gene for Lith21 (24 cM)on the basis of decreased liver mRNA expression in NZB/BlNJ animals compared to SM/J and gene coding sequences differences. On mouse Chromosome 17, Pgc (30 cM) was identified as a potential candidate for Obwq4 (32 cM).Pgc displays coding sequence differences between NZB/BlNJand SM/J. Atrnl1 was identified as a candidate for Obwq5 (52 cM) on chromosome 19. Atrnl1 displays increased liver mRNA expression in NZB/BlNJ animals compared to SM/J.

*cM position of peak correlated region/marker