Chga (chromogranin A) - Rat Genome Database
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Gene: Chga (chromogranin A) Rattus norvegicus
Analyze
Symbol: Chga
Name: chromogranin A
RGD ID: 2338
Description: Involved in several processes, including adenylate cyclase-activating adrenergic receptor signaling pathway involved in cardiac muscle relaxation; positive regulation of signal transduction; and regulation of blood circulation. Localizes to chromaffin granule; extracellular space; and neuronal dense core vesicle. Biomarker of hypertension. Human ortholog(s) of this gene implicated in IgA glomerulonephritis; end stage renal disease; hypertension; and prostate cancer. Orthologous to human CHGA (chromogranin A); PARTICIPATES IN G protein mediated signaling pathway; INTERACTS WITH (S)-nicotine; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cgA; chromogranin A (parathyroid secretory protein 1); Chromogranin A parathyroid secretory protein 1; chromogranin A precursor; Chromogranin A, parathyroid secretory protein 1; chromogranin A-like; chromogranin-A; MGC105435
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26121,696,051 - 121,707,399 (+)NCBI
Rnor_6.0 Ensembl6126,434,226 - 126,445,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06126,434,226 - 126,445,569 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06135,645,155 - 135,656,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.16126,825,283 - 126,836,311 (+)NCBI
Celera6119,184,838 - 119,196,152 (+)NCBICelera
RH 3.4 Map6845.4RGD
Cytogenetic Map6q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP,ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-methylcholine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
atrazine  (ISO)
B 823-08  (EXP)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Butylbenzyl phthalate  (EXP)
cadmium atom  (ISO)
cetrorelix  (ISO)
chlorisondamine  (ISO)
chlorpyrifos  (EXP)
clozapine  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
DDE  (EXP)
diazinon  (EXP)
dibutyl phthalate  (EXP)
diethyl phthalate  (EXP)
diisobutyl phthalate  (EXP)
diisononyl phthalate  (EXP)
disodium selenite  (ISO)
disulfiram  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
epoxiconazole  (EXP)
ethanol  (ISO)
folic acid  (ISO)
furan  (EXP)
furosemide  (EXP)
hexanal  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
linuron  (EXP)
lycopene  (ISO)
methoxychlor  (EXP)
methylphenidate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
nickel atom  (EXP)
nicotine  (EXP,ISO)
Oxotremorine  (EXP)
panobinostat  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
progesterone  (ISO)
reserpine  (EXP,ISO)
resveratrol  (ISO)
SB 431542  (ISO)
Securinine  (ISO)
sodium arsenite  (ISO)
testosterone enanthate  (ISO)
thapsigargin  (ISO)
tunicamycin  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
protein binding  (IPI,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bharat V, etal., Cell Rep. 2017 Nov 21;21(8):2118-2133. doi: 10.1016/j.celrep.2017.10.084.
2. Biswas N, etal., Endocrinology. 2009 Aug;150(8):3547-57. Epub 2009 Apr 16.
3. Chen Y, etal., Cell Mol Neurobiol. 2010 Nov;30(8):1395-400.
4. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5. Gayen JR, etal., Circ Cardiovasc Genet. 2010 Oct;3(5):414-25. Epub 2010 Aug 20.
6. GOA data from the GO Consortium
7. Gonzalez-Yanes C and Sanchez-Margalet V, Biochem Biophys Res Commun 2002 Dec 13;299(4):525-31.
8. Gonzalez-Yanes C, etal., Cell Signal. 2001 Jan;13(1):43-9.
9. Hosaka M, etal., Mol Biol Cell. 2002 Oct;13(10):3388-99.
10. Hsiao RJ, etal., Am J Med. 1990 Jun;88(6):607-13.
11. Iacangelo A, etal., FEBS Lett 1988 Jan 25;227(2):115-21.
12. Kim T, etal., Ann N Y Acad Sci 2002 Oct;971:323-31.
13. Koshimizu H, etal., J Mol Neurosci. 2011 Oct;45(2):294-303. Epub 2011 May 3.
14. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
15. Ma Z, etal., J Urol. 2010 Sep;184(3):1182-8. Epub 2010 Jul 21.
16. Mandala M, etal., Regul Pept. 2005 Jan 15;124(1-3):73-80.
17. McVicar CM, etal., Regul Pept. 2003 Aug 15;115(1):1-10.
18. MGD data from the GO Consortium
19. Molina R, etal., Tumour Biol. 2011 Feb;32(1):13-22. Epub 2010 Aug 21.
20. NCBI rat LocusLink and RefSeq merged data July 26, 2002
21. O'Connor DT, etal., Blood Press. 1999;8(5-6):285-95.
22. Parmer RJ, etal., Hypertension 1989 Oct;14(4):435-44.
23. RGD automated data pipeline
24. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. RGD automated import pipeline for gene-chemical interactions
26. RGD comprehensive gene curation
27. Salem RM, etal., J Am Soc Nephrol. 2008 Mar;19(3):600-14. Epub 2008 Jan 30.
28. Tota B, etal., FASEB J. 2012 Jul;26(7):2888-98. Epub 2012 Mar 29.
29. Umemura S, etal., Pathol Int 2001 Sep;51(9):667-70.
30. Yu L, etal., Ren Fail. 2010 Jan;32(1):41-6.
Additional References at PubMed
PMID:3044825   PMID:3896848   PMID:12242039   PMID:12397377   PMID:12477932   PMID:12646581   PMID:12902350   PMID:15326220   PMID:15723172   PMID:16219686   PMID:17540723   PMID:18483175  
PMID:18697842   PMID:18802106   PMID:19800883   PMID:20862257   PMID:21214543   PMID:21436258   PMID:23674521   PMID:23751870  


Genomics

Comparative Map Data
Chga
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.26121,696,051 - 121,707,399 (+)NCBI
Rnor_6.0 Ensembl6126,434,226 - 126,445,568 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.06126,434,226 - 126,445,569 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.06135,645,155 - 135,656,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.16126,825,283 - 126,836,311 (+)NCBI
Celera6119,184,838 - 119,196,152 (+)NCBICelera
RH 3.4 Map6845.4RGD
Cytogenetic Map6q32NCBI
CHGA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1492,923,150 - 92,935,285 (+)EnsemblGRCh38hg38GRCh38
GRCh381492,922,594 - 92,935,293 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371493,389,495 - 93,401,630 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361492,459,198 - 92,471,391 (+)NCBINCBI36hg18NCBI36
Build 341492,459,244 - 92,471,389NCBI
Celera1473,443,584 - 73,455,777 (+)NCBI
Cytogenetic Map14q32.12NCBI
HuRef1473,571,127 - 73,583,341 (+)NCBIHuRef
CHM1_11493,327,694 - 93,339,887 (+)NCBICHM1_1
Chga
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3912102,521,200 - 102,531,286 (+)NCBIGRCm39mm39
GRCm39 Ensembl12102,521,228 - 102,531,287 (+)Ensembl
GRCm3812102,554,941 - 102,565,027 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl12102,554,969 - 102,565,028 (+)EnsemblGRCm38mm10GRCm38
MGSCv3712103,793,179 - 103,803,237 (+)NCBIGRCm37mm9NCBIm37
MGSCv3612102,956,019 - 102,966,077 (+)NCBImm8
Celera12103,769,159 - 103,779,238 (+)NCBICelera
Cytogenetic Map12ENCBI
cM Map1251.66NCBI
Chga
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543815,092,394 - 15,104,381 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543815,092,267 - 15,104,321 (+)NCBIChiLan1.0ChiLan1.0
CHGA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11492,895,450 - 92,908,159 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1492,895,450 - 92,908,159 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01473,555,834 - 73,568,547 (+)NCBIMhudiblu_PPA_v0panPan3
CHGA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.181,970,966 - 1,973,511 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Chga
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936733915,700 - 927,220 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHGA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl7114,345,091 - 114,358,571 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.17114,345,542 - 114,357,799 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.27120,954,018 - 120,966,278 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHGA
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12470,663,040 - 70,675,827 (+)NCBI
ChlSab1.1 Ensembl2470,663,298 - 70,677,116 (+)Ensembl
Chga
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247349,405,121 - 9,416,774 (+)NCBI

Position Markers
RH94856  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.06126,445,331 - 126,445,478NCBIRnor6.0
Rnor_5.06135,656,135 - 135,656,282UniSTSRnor5.0
RGSC_v3.46126,832,327 - 126,832,474UniSTSRGSC3.4
Celera6119,195,914 - 119,196,061UniSTS
RH 3.4 Map6845.4UniSTS
Cytogenetic Map6q32UniSTS
RH94857  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.06126,445,379 - 126,445,512NCBIRnor6.0
Rnor_5.06135,656,183 - 135,656,316UniSTSRnor5.0
RGSC_v3.46126,832,375 - 126,832,508UniSTSRGSC3.4
Celera6119,195,962 - 119,196,095UniSTS
Cytogenetic Map6q32UniSTS
RH135429  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.06126,445,275 - 126,445,459NCBIRnor6.0
Rnor_5.06135,656,079 - 135,656,263UniSTSRnor5.0
RGSC_v3.46126,832,271 - 126,832,455UniSTSRGSC3.4
Celera6119,195,858 - 119,196,042UniSTS
RH 3.4 Map6844.19UniSTS
Cytogenetic Map6q32UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731173Uae22Urinary albumin excretion QTL 2210.1urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
2290393Uae37Urinary albumin excretion QTL 370.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)668781170147991367Rat
724536Uae7Urinary albumin excretion QTL 73.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)675623277136143011Rat
1331799Bp211Blood pressure QTL 2113.66407arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)675623277136426962Rat
1581550Pur8Proteinuria QTL 8total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)675623393136142742Rat
1581563Uae33Urinary albumin excretion QTL 33urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)675623393136142742Rat
738034Anxrr5Anxiety related response QTL 55.9exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)688507712133507712Rat
724513Uae14Urinary albumin excretion QTL 146.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)688996335139410483Rat
10054138Gmadr3Adrenal mass QTL 33.680.00045adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)689631358134631358Rat
10054123Srcrt6Stress Responsive Cort QTL 62.50.0043blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)689631358134631358Rat
1300076Glom8Glomerulus QTL 870.000000009kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)691703409136703409Rat
2303624Vencon5Ventilatory control QTL 54.45respiration trait (VT:0001943)minute ventilation (VE) (CMO:0000132)692879510137879510Rat
1331725Bp212Blood pressure QTL 2123.52475arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)697949772133849286Rat
12801411Schws8Schwannoma susceptibility QTL 8nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)699273921144273921Rat
61414Pia3Pristane induced arthritis QTL 34.5joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)699273921144792678Rat
8552796Vie3Viral induced encephalitis QTL 32.6brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)6101207574147991367Rat
1358355Srcrt4Stress Responsive Cort QTL 46.39blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)6104363890147991367Rat
2313399Anxrr28Anxiety related response QTL 28aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)6104381930138066274Rat
1331797Bp213Blood pressure QTL 2133.291arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)6108154445133849286Rat
4145118Mcs26Mammary carcinoma susceptibility QTL 260.0001mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)6111134524138065254Rat
737976Pia24Pristane induced arthritis QTL 24joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)6117355600147991367Rat
1298087Iddm18Insulin dependent diabetes mellitus QTL 180.0001urine glucose amount (VT:0001758)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)6121224054135658578Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:89
Count of miRNA genes:71
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000010592
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 8 72 6
Low 1 15 7 13 7 4 4 2 6 29 5 4
Below cutoff 19 12 12 4 12 4 4 15 6 6 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000090857   ⟹   ENSRNOP00000070296
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl6126,434,226 - 126,445,568 (+)Ensembl
RefSeq Acc Id: NM_021655   ⟹   NP_067687
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.26121,696,051 - 121,707,399 (+)NCBI
Rnor_6.06126,434,226 - 126,445,569 (+)NCBI
Rnor_5.06135,645,155 - 135,656,373 (+)NCBI
Celera6119,184,838 - 119,196,152 (+)RGD
Sequence:
Reference Sequences
RefSeq Acc Id: NP_067687   ⟸   NM_021655
- Peptide Label: precursor
- UniProtKB: Q5PPG5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070296   ⟸   ENSRNOT00000090857

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13694784
Promoter ID:EPDNEW_R5308
Type:single initiation site
Name:Chga_1
Description:chromogranin A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.06126,434,227 - 126,434,287EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2338 AgrOrtholog
Ensembl Genes ENSRNOG00000052549 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000070296 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000090857 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7313842 IMAGE-MGC_LOAD
InterPro Chromogranin_AB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Chromogranin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Granin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24258 UniProtKB/TrEMBL
MGC_CLONE MGC:105435 IMAGE-MGC_LOAD
NCBI Gene 24258 ENTREZGENE
PANTHER PTHR10583 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Granin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Chga PhenoGen
PRINTS CHROMOGRANIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE GRANINS_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  GRANINS_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CMGA_RAT UniProtKB/Swiss-Prot
  F8QYX0_RAT UniProtKB/TrEMBL
  F8QYX1_RAT UniProtKB/TrEMBL
  P10354 ENTREZGENE
  Q5PPG5 ENTREZGENE, UniProtKB/TrEMBL
  Q9R1B7_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-03-26 Chga  chromogranin A  Chga  chromogranin A (parathyroid secretory protein 1)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-10-17 Chga  chromogranin A (parathyroid secretory protein 1)  Chga  chromogranin A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-01-09 Chga  chromogranin A (parathyroid secretory protein 1)  Chga  chromogranin A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Chga  chromogranin A    Chromogranin A, parathyroid secretory protein 1  Name updated 625702 APPROVED
2002-06-10 Chga  Chromogranin A, parathyroid secretory protein 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the secretory granule 724711
gene_pathway may stimulate protein synthesis machinery by stimulating Pkc and downstream elements like S6k,4E-BP1 and eIF4E 628522
gene_process counter regulates insulin action by activating a receptor-effector system(G alphaQ/11protin-PLC-beta-PKCclassical); stimulates basal and insulin-mediated protein synthesis; promotes phosphorylation of eIF2E and 4E-BP1 by stimulating S6 kinase activity 628522
gene_process chromogranin A-derived peptide involved in metabolic activation, regulation of insulin signaling and stimulation of protein synthesis in adipocytes 628522
gene_process modulates glucose, lipid and protein metabolism in adipocytes 628522