Acan (aggrecan) - Rat Genome Database

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Gene: Acan (aggrecan) Rattus norvegicus
Symbol: Acan
Name: aggrecan
RGD ID: 68358
Description: Enables calcium ion binding activity. Involved in several processes, including chondroblast differentiation; response to acidic pH; and response to glucose. Located in extracellular space; neuronal cell body; and perineuronal net. Used to study degenerative disc disease. Biomarker of congestive heart failure; degenerative disc disease; osteoarthritis; and status epilepticus. Human ortholog(s) of this gene implicated in spondyloepiphyseal dysplasia Kimberley type. Orthologous to human ACAN (aggrecan); INTERACTS WITH (S)-nicotine; 2,3,7,8-Tetrachlorodibenzofuran; 2-amino-2-deoxy-D-glucopyranose.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Agc; Agc1; aggrecan 1; aggrecan core protein; aggrecan structural proteoglycan of cartilage; aggrecan, structural proteoglycan of cartilage; cartilage-specific proteoglycan core protein; CSPCP
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
GRCr81142,390,951 - 142,453,779 (+)NCBIGRCr8
mRatBN7.21132,981,582 - 133,044,416 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1132,981,582 - 133,043,627 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1140,898,116 - 140,961,070 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01148,067,548 - 148,130,499 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01140,985,237 - 141,048,183 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01140,762,758 - 140,824,441 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1140,762,758 - 140,824,441 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01141,732,130 - 141,793,202 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,787,341 - 134,848,992 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11134,865,683 - 134,927,335 (+)NCBI
Celera1125,052,984 - 125,114,449 (+)NCBICelera
Cytogenetic Map1q31NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-aza-2'-deoxycytidine  (EXP)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (EXP,ISO)
alginic acid  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
amiloride  (EXP)
Ammothamnine  (ISO)
antirheumatic drug  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
berberine  (ISO)
beta-D-glucosamine  (EXP,ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
Butylparaben  (ISO)
cadmium dichloride  (EXP)
caffeine  (EXP)
celecoxib  (EXP)
CHIR 99021  (ISO)
chlorpyrifos  (ISO)
cocaine  (EXP)
corticosterone  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
disodium selenite  (ISO)
ethanol  (EXP,ISO)
ethylparaben  (ISO)
formaldehyde  (ISO)
gallic acid  (EXP)
glyphosate  (ISO)
hyaluronic acid  (ISO)
indometacin  (ISO)
ionomycin  (ISO)
irigenin  (ISO)
L-ascorbic acid  (ISO)
lead diacetate  (ISO)
LY-2157299  (EXP)
melatonin  (ISO)
mevalonic acid  (EXP)
mifepristone  (EXP)
N-nitrosodiethylamine  (EXP)
nicotine  (EXP)
nitrofen  (EXP)
paraquat  (ISO)
perfluorooctanoic acid  (EXP)
phenethyl caffeate  (EXP)
progesterone  (ISO)
raloxifene  (EXP)
resveratrol  (ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
sulfamethoxazole  (EXP)
T-2 toxin  (ISO)
tamibarotene  (ISO)
Theaflavin 3,3'-digallate  (EXP)
thiram  (ISO)
triclosan  (ISO)
triptonide  (ISO)
valproic acid  (EXP)


References - curated
# Reference Title Reference Citation
1. Effect of dynamic compressive loading and its combination with a growth factor on the chondrocytic phenotype of 3-dimensional scaffold-embedded chondrocytes. Ando K, etal., Acta Orthop. 2009 Dec;80(6):724-33.
2. Localization and developmental expression patterns of CSPG-cs56 (aggrecan) in normal and dystrophic retinas in two rat strains. Chen LF, etal., Exp Neurol. 2012 Apr;234(2):488-98. doi: 10.1016/j.expneurol.2012.01.023. Epub 2012 Jan 27.
3. Microarray cluster analysis of irradiated growth plate zones following laser microdissection. Damron TA, etal., Int J Radiat Oncol Biol Phys. 2009 Jul 1;74(3):949-56.
4. Complete primary structure of the rat cartilage proteoglycan core protein deduced from cDNA clones. Doege K, etal., J Biol Chem 1987 Dec 25;262(36):17757-67.
5. A remote upstream element regulates tissue-specific expression of the rat aggrecan gene. Doege K, etal., J Biol Chem 2002 Apr 19;277(16):13989-97.
6. An immunoaffinity liquid chromatography-tandem mass spectrometry assay for detection of endogenous aggrecan fragments in biological fluids: Use as a biomarker for aggrecanase activity and cartilage degradation. Dufield DR, etal., Anal Biochem. 2010 Nov 15;406(2):113-23. doi: 10.1016/j.ab.2010.06.044. Epub 2010 Jul 23.
7. Combined microwave irradiation and intraarticular glutamine administration-induced HSP70 expression therapy prevents cartilage degradation in a rat osteoarthritis model. Fujita S, etal., J Orthop Res. 2012 Mar;30(3):401-7. doi: 10.1002/jor.21535. Epub 2011 Aug 18.
8. Distribution and synthesis of extracellular matrix proteoglycans, hyaluronan, link proteins and tenascin-R in the rat spinal cord. Galtrey CM, etal., Eur J Neurosci. 2008 Mar;27(6):1373-90.
9. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. A mutation in the variable repeat region of the aggrecan gene (AGC1) causes a form of spondyloepiphyseal dysplasia associated with severe, premature osteoarthritis. Gleghorn L, etal., Am J Hum Genet. 2005 Sep;77(3):484-90. Epub 2005 Jul 22.
11. A rat tail temporary static compression model reproduces different stages of intervertebral disc degeneration with decreased notochordal cell phenotype. Hirata H, etal., J Orthop Res. 2014 Mar;32(3):455-63. doi: 10.1002/jor.22533. Epub 2013 Nov 28.
12. Androgen-regulated cervical ripening: a structural, biomechanical, and molecular analysis. Ji H, etal., Am J Obstet Gynecol. 2008 May;198(5):543.e1-9. Epub 2008 Feb 14.
13. Mechanism of Yiqi Huayu Bushen Recipe in treating cervical syndrome with kidney deficiency in rats Jiang JC, etal., Zhong Xi Yi Jie He Xue Bao. 2008 Dec;6(12):1280-5. doi: 10.3736/jcim200812114.
14. Intact aggrecan and chondroitin sulfate-depleted aggrecan core glycoprotein inhibit axon growth in the adult rat spinal cord. Lemons ML, etal., Exp Neurol. 2003 Dec;184(2):981-90.
15. Expression of hedgehog signal pathway in articular cartilage is associated with the severity of cartilage damage in rats with adjuvant-induced arthritis. Li R, etal., J Inflamm (Lond). 2015 Mar 28;12:24. doi: 10.1186/s12950-015-0072-5. eCollection 2015.
16. Sustained expression of proteoglycans and collagen type III/type I ratio in a calcified tendinopathy model. Lui PP, etal., Rheumatology (Oxford). 2009 Dec 2.
17. Structural basis for interactions between tenascins and lectican C-type lectin domains: evidence for a crosslinking role for tenascins. Lundell A, etal., Structure. 2004 Aug;12(8):1495-506.
18. Enriched housing enhances recovery of limb placement ability and reduces aggrecan-containing perineuronal nets in the rat somatosensory cortex after experimental stroke. Madinier A, etal., PLoS One. 2014 Mar 24;9(3):e93121. doi: 10.1371/journal.pone.0093121. eCollection 2014.
19. Aggrecan glycoforms contribute to the molecular heterogeneity of perineuronal nets. Matthews RT, etal., J Neurosci 2002 Sep 1;22(17):7536-47.
20. Persistent decrease in multiple components of the perineuronal net following status epilepticus. McRae PA, etal., Eur J Neurosci. 2012 Dec;36(11):3471-82. doi: 10.1111/j.1460-9568.2012.08268.x. Epub 2012 Aug 31.
21. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
22. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
23. Short stature, accelerated bone maturation, and early growth cessation due to heterozygous aggrecan mutations. Nilsson O, etal., J Clin Endocrinol Metab. 2014 Aug;99(8):E1510-8. doi: 10.1210/jc.2014-1332. Epub 2014 Apr 24.
24. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
25. Cyclic acetal hydroxyapatite composites and endogenous osteogenic gene expression of rat marrow stromal cells. Patel M, etal., J Tissue Eng Regen Med. 2010 Jan 4.
26. Inhibitory effects of PG-H/aggrecan and PG-M/versican on avian neural crest cell migration. Perris R, etal., FASEB J. 1996 Feb;10(2):293-301.
27. Localization of aggrecan and versican in the developing rat central nervous system. Popp S, etal., Dev Dyn 2003 May;227(1):143-9.
28. Idiopathic short stature due to novel heterozygous mutation of the aggrecan gene. Quintos JB, etal., J Pediatr Endocrinol Metab. 2015 Jul;28(7-8):927-32. doi: 10.1515/jpem-2014-0450.
29. GOA pipeline RGD automated data pipeline
30. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
31. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
32. ADAMTS1 cleaves aggrecan at multiple sites and is differentially inhibited by metalloproteinase inhibitors. Rodriguez-Manzaneque JC, etal., Biochem Biophys Res Commun 2002 Apr 26;293(1):501-8.
33. Isolation and Characterization of Multi-potent Rat Tendon-derived Stem Cells. Rui YF, etal., Tissue Eng Part A. 2009 Dec 9.
34. Differential regulation of chondroitin sulfate proteoglycan mRNAs in the denervated rat fascia dentata after unilateral entorhinal cortex lesion. Schafer R, etal., Neurosci Lett. 2008 Jul 4;439(1):61-5. Epub 2008 May 2.
35. The heterozygous disproportionate micromelia (dmm) mouse: morphological changes in fetal cartilage precede postnatal dwarfism and compared with lethal homozygotes can explain the mild phenotype. Seegmiller RE, etal., J Histochem Cytochem. 2008 Nov;56(11):1003-11. doi: 10.1369/jhc.2008.951673. Epub 2008 Aug 4.
36. White matter extracellular matrix chondroitin sulfate/dermatan sulfate proteoglycans in multiple sclerosis. Sobel RA and Ahmed AS, J Neuropathol Exp Neurol. 2001 Dec;60(12):1198-207.
37. Establishment of a novel dwarf rat strain: cartilage calcification insufficient (CCI) rats. Tanaka M, etal., Exp Anim. 2015;64(2):121-8. doi: 10.1538/expanim.14-0072. Epub 2014 Dec 20.
38. Influence of aging on chondroitin sulfate proteoglycan expression and neural stem/progenitor cells in rat brain and improving effects of a herbal medicine, yokukansan. Tanaka Y and Mizoguchi K, Neuroscience. 2009 Dec 15;164(3):1224-34. Epub 2009 Sep 1.
39. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
40. Silencing of tuberin enhances photoreceptor survival and function in a preclinical model of retinitis pigmentosa (an american ophthalmological society thesis). Tsang SH, etal., Trans Am Ophthalmol Soc. 2014 Jul;112:103-15.
41. In vivo bone-specific EphB4 overexpression in mice protects both subchondral bone and cartilage during osteoarthritis. Valverde-Franco G, etal., Arthritis Rheum. 2012 Nov;64(11):3614-25. doi: 10.1002/art.34638.
42. Radiographic joint damage in rheumatoid arthritis is associated with differences in cartilage turnover and can be predicted by serum biomarkers: an evaluation from 1 to 4 years after diagnosis. Verstappen SM, etal., Arthritis Res Ther. 2006;8(1):R31. Epub 2006 Jan 10.
43. Pentosan polysulfate decreases myocardial expression of the extracellular matrix enzyme ADAMTS4 and improves cardiac function in vivo in rats subjected to pressure overload by aortic banding. Vistnes M, etal., PLoS One. 2014 Mar 3;9(3):e89621. doi: 10.1371/journal.pone.0089621. eCollection 2014.
44. Mice lacking link protein develop dwarfism and craniofacial abnormalities. Watanabe H and Yamada Y, Nat Genet 1999 Feb;21(2):225-9.
45. Mouse cartilage matrix deficiency (cmd) caused by a 7 bp deletion in the aggrecan gene. Watanabe H, etal., Nat Genet. 1994 Jun;7(2):154-7.
46. Dwarfism and age-associated spinal degeneration of heterozygote cmd mice defective in aggrecan. Watanabe H, etal., Proc Natl Acad Sci U S A 1997 Jun 24;94(13):6943-7.
47. MSC response to pH levels found in degenerating intervertebral discs. Wuertz K, etal., Biochem Biophys Res Commun. 2009 Feb 20;379(4):824-9. Epub 2009 Jan 6.
48. Behavior of mesenchymal stem cells in the chemical microenvironment of the intervertebral disc. Wuertz K, etal., Spine (Phila Pa 1976). 2008 Aug 1;33(17):1843-9.
49. Effects of reloading after simulated microgravity on proteoglycan metabolism in the nucleus pulposus and anulus fibrosus of the lumbar intervertebral disc: an experimental study using a rat tail suspension model. Yasuoka H, etal., Spine (Phila Pa 1976). 2007 Dec 1;32(25):E734-40.
50. Simvastatin stimulates chondrogenic phenotype of intervertebral disc cells partially through BMP-2 pathway. Zhang H and Lin CY, Spine (Phila Pa 1976). 2008 Jul 15;33(16):E525-31.
Additional References at PubMed
PMID:2424893   PMID:3070812   PMID:3693371   PMID:8349621   PMID:9664687   PMID:14620382   PMID:16061471   PMID:16079159   PMID:17206619   PMID:17442734   PMID:18849019   PMID:19711351  
PMID:20155822   PMID:20551380   PMID:20592578   PMID:21055467   PMID:22357747   PMID:22961837   PMID:24006456   PMID:24554731   PMID:24647564   PMID:25807483   PMID:26165845   PMID:27068509  
PMID:27615741   PMID:29476059   PMID:30981839   PMID:37227215  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
GRCr81142,390,951 - 142,453,779 (+)NCBIGRCr8
mRatBN7.21132,981,582 - 133,044,416 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1132,981,582 - 133,043,627 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1140,898,116 - 140,961,070 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01148,067,548 - 148,130,499 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01140,985,237 - 141,048,183 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01140,762,758 - 140,824,441 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1140,762,758 - 140,824,441 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01141,732,130 - 141,793,202 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41134,787,341 - 134,848,992 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11134,865,683 - 134,927,335 (+)NCBI
Celera1125,052,984 - 125,114,449 (+)NCBICelera
Cytogenetic Map1q31NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh381588,803,436 - 88,875,353 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1588,803,436 - 88,875,353 (+)EnsemblGRCh38hg38GRCh38
GRCh371589,346,667 - 89,418,584 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361587,147,678 - 87,219,589 (+)NCBINCBI36Build 36hg18NCBI36
Build 341587,147,993 - 87,218,832NCBI
Celera1565,748,790 - 65,819,902 (+)NCBICelera
Cytogenetic Map15q26.1NCBI
HuRef1565,458,891 - 65,530,587 (+)NCBIHuRef
CHM1_11589,188,178 - 89,259,230 (+)NCBICHM1_1
T2T-CHM13v2.01586,558,075 - 86,629,996 (+)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm39778,702,974 - 78,764,847 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl778,703,231 - 78,764,847 (+)EnsemblGRCm39 Ensembl
GRCm38779,053,226 - 79,115,099 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl779,053,483 - 79,115,099 (+)EnsemblGRCm38mm10GRCm38
MGSCv37786,198,369 - 86,259,985 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36778,926,996 - 78,988,612 (+)NCBIMGSCv36mm8
Celera776,452,812 - 76,514,796 (+)NCBICelera
Cytogenetic Map7D2NCBI
cM Map744.88NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0NW_00495541616,125,536 - 16,186,046 (-)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
NHGRI_mPanPan1-v21678,348,136 - 78,419,653 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11582,052,905 - 82,124,198 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01567,492,494 - 67,563,265 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11586,733,853 - 86,771,420 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1586,733,853 - 86,771,420 (+)Ensemblpanpan1.1panPan2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
CanFam3.1351,995,100 - 52,031,812 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl351,969,779 - 52,031,544 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha354,631,503 - 54,667,931 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0352,389,075 - 52,451,203 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl352,388,755 - 52,450,486 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1351,936,640 - 51,973,031 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0352,147,017 - 52,183,413 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0352,485,855 - 52,522,279 (+)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_024408640131,487,810 - 131,554,134 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648314,811,152 - 14,846,305 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648314,811,152 - 14,846,305 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl754,449,816 - 54,519,194 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1754,449,830 - 54,520,606 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2759,444,443 - 59,484,493 (+)NCBISscrofa10.2Sscrofa10.2susScr3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.1297,345,350 - 7,416,951 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605939,423,196 - 39,494,914 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla 1.0NW_00462476816,093,552 - 16,156,655 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Acan
336 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:166
Count of miRNA genes:78
Interacting mature miRNAs:82
Transcripts:ENSRNOT00000047848, ENSRNOT00000049681
Prediction methods:Microtar, Rnahybrid
Result types:miRGate_prediction

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

miRNA Target Status data imported from miRGate (
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
9590300Scort16Serum corticosterone level QTL 164.390.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1103111621148111621Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
631570Bp94Blood pressure QTL 940.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123479780142990467Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
61346Rf2Renal disease susceptibility QTL 23.7urine protein amount (VT:0005160)urine protein level (CMO:0000591)199267916144267916Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
2317833Alcrsp19Alcohol response QTL 1912.40.001response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)190664883143200202Rat
631202Gluco13Glucose level QTL 130.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1131763437159756369Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1641897Alcrsp1Alcohol response QTL 1response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1100979852145979852Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192184926137184926Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)187580395150700247Rat
61370Mcs3Mammary carcinoma susceptibility QTL 32.15mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1102268556147268556Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
631496Bp97Blood pressure QTL 973.08arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1106047847151047847Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
2303591Gluco41Glucose level QTL 412blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1102168504147168504Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
61399Tcat1Tongue tumor resistance QTL 13.3tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 5 mm (CMO:0001879)199267916144267916Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)192948896144267916Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
8694370Bw154Body weight QTL 1548.910.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)1103111621148111621Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
1354623Rf46Renal function QTL 463.8blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)1102813953151162766Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,043,626 - 133,043,842 (+)MAPPERmRatBN7.2
Rnor_6.01140,824,441 - 140,824,656NCBIRnor6.0
Rnor_5.01141,793,202 - 141,793,417UniSTSRnor5.0
RGSC_v3.41134,848,992 - 134,849,207UniSTSRGSC3.4
Celera1125,114,449 - 125,114,664UniSTS
RH 3.4 Map11060.8UniSTS
Cytogenetic Map1q31UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,018,218 - 133,019,509 (+)MAPPERmRatBN7.2
Rnor_6.01140,799,032 - 140,800,322NCBIRnor6.0
Rnor_5.01141,767,793 - 141,769,083UniSTSRnor5.0
RGSC_v3.41134,823,581 - 134,824,871UniSTSRGSC3.4
RGSC_v3.4X155,532,876 - 155,532,902UniSTSRGSC3.4
Celera1125,089,066 - 125,090,356UniSTS
Cytogenetic Map1q31UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,017,291 - 133,017,485 (+)MAPPERmRatBN7.2
Rnor_6.01140,798,105 - 140,798,298NCBIRnor6.0
Rnor_5.01141,766,866 - 141,767,059UniSTSRnor5.0
RGSC_v3.41134,822,654 - 134,822,847UniSTSRGSC3.4
Celera1125,088,139 - 125,088,332UniSTS
Cytogenetic Map1q31UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21133,020,167 - 133,021,602 (+)MAPPERmRatBN7.2
Rnor_6.01140,800,981 - 140,802,415NCBIRnor6.0
Rnor_5.01141,769,742 - 141,771,176UniSTSRnor5.0
RGSC_v3.41134,825,530 - 134,826,964UniSTSRGSC3.4
Celera1125,091,015 - 125,092,449UniSTS
Cytogenetic Map1q31UniSTS


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
Low 20 6 6 4 5 46 8 24 7 4
Below cutoff 2 11 5 1 8 1 3 4 28 23 13 1 3


RefSeq Acc Id: ENSRNOT00000047848   ⟹   ENSRNOP00000042691
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,981,582 - 133,043,627 (+)Ensembl
Rnor_6.0 Ensembl1140,762,758 - 140,824,441 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000049681   ⟹   ENSRNOP00000044130
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1132,981,582 - 133,043,627 (+)Ensembl
Rnor_6.0 Ensembl1140,792,049 - 140,824,379 (+)Ensembl
RefSeq Acc Id: NM_022190   ⟹   NP_071526
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
GRCr81142,390,951 - 142,453,779 (+)NCBI
mRatBN7.21132,981,582 - 133,044,416 (+)NCBI
RefSeq Acc Id: XM_039101035   ⟹   XP_038956963
Rat AssemblyChrPosition (strand)Source
GRCr81142,390,973 - 142,453,779 (+)NCBI
mRatBN7.21132,981,607 - 133,044,416 (+)NCBI
RefSeq Acc Id: ENSRNOP00000042691   ⟸   ENSRNOT00000047848
RefSeq Acc Id: ENSRNOP00000044130   ⟸   ENSRNOT00000049681
RefSeq Acc Id: XP_038956963   ⟸   XM_039101035
- Peptide Label: isoform X1
- UniProtKB: F1LQI4 (UniProtKB/TrEMBL),   A6JC42 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_071526   ⟸   NM_022190
- Peptide Label: precursor
- UniProtKB: D4A7Y1 (UniProtKB/TrEMBL),   A6JC41 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
C-type lectin   EGF-like   Ig-like   Ig-like V-type   Link   Sushi

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P07897-F1-model_v2 AlphaFold P07897 1-2124 view protein structure


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

RGD ID:13690126
Promoter ID:EPDNEW_R650
Type:initiation region
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Rat AssemblyChrPosition (strand)Source
Rnor_6.01140,762,759 - 140,762,819EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68358 AgrOrtholog
BioCyc Gene G2FUF-58814 BioCyc
Ensembl Genes ENSRNOG00000028992 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047848 ENTREZGENE
  ENSRNOT00000047848.5 UniProtKB/TrEMBL
  ENSRNOT00000049681.7 UniProtKB/TrEMBL
Gene3D-CATH UniProtKB/Swiss-Prot, UniProtKB/TrEMBL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Complement Module, domain 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CSPG_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EG-like_dom UniProtKB/TrEMBL
  EGF-like_Ca-bd UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  Ig-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig/MHC_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_sub UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Link_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi/SCR/CCP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi_SCR_CCP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sushi UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  V-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Xlink UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Acan PhenoGen
  C_TYPE_LECTIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_1 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  IG_LIKE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IG_MHC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SUSHI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000028992 RatGTEx
SMART CCP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGv UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LINK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00409 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57535 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC233441
  P07897 ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-18 Acan  aggrecan  Agc1  aggrecan 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Agc1  aggrecan 1      Symbol and Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process functions to resist compression in cartilage where it binds avidly to hyaluronic acid via an amino-terminal globular region. may play a regulatory role in the matrix assembly of the cartilage 724707