Sparcl1 (SPARC like 1) - Rat Genome Database

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Gene: Sparcl1 (SPARC like 1) Rattus norvegicus
Analyze
Symbol: Sparcl1
Name: SPARC like 1
RGD ID: 2531
Description: Predicted to enable calcium ion binding activity; collagen binding activity; and extracellular matrix binding activity. Involved in regulation of synapse organization. Is active in extracellular matrix of synaptic cleft and glutamatergic synapse. Orthologous to human SPARCL1 (SPARC like 1); INTERACTS WITH (+)-pilocarpine; 1,2,4-trimethylbenzene; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Ecm2; Extracellular matrix protein 2; matrix glycoprotein Sc1; Sc1; SPARC-like 1; SPARC-like 1 (hevin); SPARC-like 1 (mast9, hevin); SPARC-like protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8145,937,484 - 5,968,532 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl145,914,535 - 5,969,120 (+)EnsemblGRCr8
mRatBN7.2145,632,816 - 5,663,866 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,632,569 - 5,663,865 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx145,601,783 - 5,632,794 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0146,902,017 - 6,933,024 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0145,600,631 - 5,631,801 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0146,994,261 - 7,025,309 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,994,190 - 7,025,308 (+)Ensemblrn6Rnor6.0
Rnor_5.0146,985,394 - 7,016,296 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4146,766,347 - 6,797,581 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera145,771,812 - 5,802,805 (+)NCBICelera
RGSC_v3.1146,766,346 - 6,797,580 (+)NCBI
Cytogenetic Map14p22NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
1,2,4-trimethylbenzene  (EXP)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2,6-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
acetamide  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
cantharidin  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
CGP 52608  (ISO)
chitosan  (ISO)
choline  (ISO)
chrysene  (ISO)
cocaine  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
cordycepin  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dichloroacetic acid  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fentin chloride  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (EXP)
indole-3-methanol  (EXP)
indometacin  (ISO)
inulin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
leflunomide  (EXP)
lithium atom  (EXP)
lithium hydride  (EXP)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
N-nitrosodiethylamine  (ISO)
nitrofen  (EXP)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
rotenone  (EXP)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
undecane  (EXP)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Molecular cloning of SC1: a putative brain extracellular matrix glycoprotein showing partial similarity to osteonectin/BM40/SPARC. Johnston IG, etal., Neuron 1990 Jan;4(1):165-76.
3. Control of excitatory CNS synaptogenesis by astrocyte-secreted proteins Hevin and SPARC. Kucukdereli H, etal., Proc Natl Acad Sci U S A. 2011 Aug 9;108(32):E440-9. doi: 10.1073/pnas.1104977108. Epub 2011 Jul 25.
4. Localization of the extracellular matrix protein SC1 to synapses in the adult rat brain. Lively S, etal., Neurochem Res. 2007 Jan;32(1):65-71. doi: 10.1007/s11064-006-9226-4. Epub 2006 Dec 7.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
11. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:16502470   PMID:18335312   PMID:21937915   PMID:22588386   PMID:23376485   PMID:26771491   PMID:27068509   PMID:35820448   PMID:37534667  


Genomics

Comparative Map Data
Sparcl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8145,937,484 - 5,968,532 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl145,914,535 - 5,969,120 (+)EnsemblGRCr8
mRatBN7.2145,632,816 - 5,663,866 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl145,632,569 - 5,663,865 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx145,601,783 - 5,632,794 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0146,902,017 - 6,933,024 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0145,600,631 - 5,631,801 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0146,994,261 - 7,025,309 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,994,190 - 7,025,308 (+)Ensemblrn6Rnor6.0
Rnor_5.0146,985,394 - 7,016,296 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4146,766,347 - 6,797,581 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera145,771,812 - 5,802,805 (+)NCBICelera
RGSC_v3.1146,766,346 - 6,797,580 (+)NCBI
Cytogenetic Map14p22NCBI
SPARCL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38487,473,335 - 87,529,376 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl487,473,329 - 87,531,118 (-)Ensemblhg38GRCh38
GRCh37488,394,487 - 88,450,528 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36488,613,511 - 88,669,530 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34488,751,668 - 88,807,685NCBI
Celera485,683,694 - 85,739,861 (-)NCBICelera
Cytogenetic Map4q22.1NCBI
HuRef484,140,423 - 84,196,598 (-)NCBIHuRef
CHM1_1488,371,316 - 88,427,455 (-)NCBICHM1_1
T2T-CHM13v2.0490,802,350 - 90,858,405 (-)NCBIT2T-CHM13v2.0
Sparcl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395104,226,974 - 104,261,954 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5104,226,977 - 104,261,599 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm385104,079,108 - 104,114,088 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5104,079,111 - 104,113,733 (-)Ensemblmm10GRCm38
MGSCv375104,508,127 - 104,543,107 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv365104,319,413 - 104,354,006 (-)NCBIMGSCv36mm8
Celera5101,385,822 - 101,420,665 (-)NCBICelera
Cytogenetic Map5E5NCBI
cM Map550.55NCBI
Sparcl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554742,370,237 - 2,391,285 (+)Ensembl
ChiLan1.0NW_0049554742,352,662 - 2,387,237 (+)NCBIChiLan1.0ChiLan1.0
SPARCL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2385,482,960 - 85,539,823 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1485,745,304 - 85,802,172 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0479,769,085 - 79,825,430 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1490,495,769 - 90,551,960 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl490,498,810 - 90,521,665 (-)EnsemblpanPan2panpan1.1
HSD17B11
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13210,821,332 - 10,854,541 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3210,794,617 - 10,854,193 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3231,099,926 - 31,132,979 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03210,873,296 - 10,906,759 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3210,845,726 - 10,906,673 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13210,954,508 - 10,987,556 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03210,782,541 - 10,815,990 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03229,139,474 - 29,172,518 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sparcl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244052852,115,830 - 2,154,939 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936905535,355 - 574,734 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936905535,589 - 574,719 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPARCL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8131,386,973 - 131,431,200 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.18131,386,804 - 131,431,427 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28140,599,058 - 140,643,513 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SPARCL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1735,858,402 - 35,914,776 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl735,857,559 - 35,915,115 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603714,558,006 - 14,615,157 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sparcl1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248723,981,072 - 3,997,533 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248723,981,166 - 4,015,843 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Sparcl1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11114,142,463 - 14,174,036 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Sparcl1
283 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:25
Interacting mature miRNAs:26
Transcripts:ENSRNOT00000020357
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14395787821572472Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14395787818558812Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1439578789393298Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14111334906Rat
71117Niddm17Non-insulin dependent diabetes mellitus QTL 172.35blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14117877928Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat

Markers in Region
D14Wox22  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,663,514 - 5,663,677 (+)MAPPERmRatBN7.2
Rnor_6.0147,024,958 - 7,025,120NCBIRnor6.0
Rnor_5.0147,015,945 - 7,016,107UniSTSRnor5.0
RGSC_v3.4146,797,230 - 6,797,392UniSTSRGSC3.4
Celera145,802,454 - 5,802,616UniSTS
Cytogenetic Map14p22UniSTS
AW529913  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,650,920 - 5,651,114 (+)MAPPERmRatBN7.2
Rnor_6.0147,012,366 - 7,012,559NCBIRnor6.0
Rnor_5.0147,003,353 - 7,003,546UniSTSRnor5.0
RGSC_v3.4146,784,638 - 6,784,831UniSTSRGSC3.4
Celera145,789,860 - 5,790,053UniSTS
RH 3.4 Map14115.7UniSTS
Cytogenetic Map14p22UniSTS
D21S1917  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21910,198,146 - 10,198,193 (+)MAPPERmRatBN7.2
mRatBN7.2145,647,345 - 5,647,929 (+)MAPPERmRatBN7.2
Rnor_6.0147,008,791 - 7,009,374NCBIRnor6.0
Rnor_6.01910,615,050 - 10,615,096NCBIRnor6.0
Rnor_5.01910,609,857 - 10,609,903UniSTSRnor5.0
Rnor_5.0146,999,778 - 7,000,361UniSTSRnor5.0
RGSC_v3.4146,781,063 - 6,781,646UniSTSRGSC3.4
RGSC_v3.41910,637,206 - 10,637,252UniSTSRGSC3.4
Celera1910,084,530 - 10,084,576UniSTS
Celera145,786,285 - 5,786,868UniSTS
Cytogenetic Map14p22UniSTS
SPARCL1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,658,228 - 5,658,324 (+)MAPPERmRatBN7.2
Rnor_6.0147,019,673 - 7,019,768NCBIRnor6.0
Rnor_5.0147,010,660 - 7,010,755UniSTSRnor5.0
RGSC_v3.4146,791,945 - 6,792,040UniSTSRGSC3.4
Celera145,797,169 - 5,797,264UniSTS
Cytogenetic Map14p22UniSTS
RH133331  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2145,663,520 - 5,663,724 (+)MAPPERmRatBN7.2
Rnor_6.0147,024,964 - 7,025,167NCBIRnor6.0
Rnor_5.0147,015,951 - 7,016,154UniSTSRnor5.0
RGSC_v3.4146,797,236 - 6,797,439UniSTSRGSC3.4
Celera145,802,460 - 5,802,663UniSTS
RH 3.4 Map14116.4UniSTS
Cytogenetic Map14p22UniSTS
RH137752  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8145,948,174 - 5,948,353 (+)Marker Load Pipeline
mRatBN7.2145,643,506 - 5,643,685 (+)MAPPERmRatBN7.2
Rnor_6.0147,004,952 - 7,005,130NCBIRnor6.0
Rnor_5.0146,995,939 - 6,996,117UniSTSRnor5.0
RGSC_v3.4146,777,224 - 6,777,402UniSTSRGSC3.4
Celera145,782,446 - 5,782,624UniSTS
RH 3.4 Map1488.2UniSTS
Cytogenetic Map14p22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 43 59 6 305 143 11 143 79 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000020357   ⟹   ENSRNOP00000020357
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl145,937,410 - 5,968,530 (+)Ensembl
mRatBN7.2 Ensembl145,632,569 - 5,663,865 (+)Ensembl
Rnor_6.0 Ensembl146,994,190 - 7,025,308 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000125905   ⟹   ENSRNOP00000100782
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl145,926,723 - 5,968,532 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000142668   ⟹   ENSRNOP00000101585
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl145,937,750 - 5,968,530 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000160393   ⟹   ENSRNOP00000099816
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl145,914,535 - 5,969,120 (+)Ensembl
RefSeq Acc Id: NM_012946   ⟹   NP_037078
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8145,937,484 - 5,968,532 (+)NCBI
mRatBN7.2145,632,816 - 5,663,866 (+)NCBI
Rnor_6.0146,994,261 - 7,025,309 (+)NCBI
Rnor_5.0146,985,394 - 7,016,296 (+)NCBI
RGSC_v3.4146,766,347 - 6,797,581 (+)RGD
Celera145,771,812 - 5,802,805 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_037078 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA68708 (Get FASTA)   NCBI Sequence Viewer  
  AAH61755 (Get FASTA)   NCBI Sequence Viewer  
  EDL99503 (Get FASTA)   NCBI Sequence Viewer  
  EDL99504 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000101585
GenBank Protein P24054 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037078   ⟸   NM_012946
- Peptide Label: precursor
- UniProtKB: A6K5T4 (UniProtKB/TrEMBL),   Q6P7A8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000020357   ⟸   ENSRNOT00000020357
Ensembl Acc Id: ENSRNOP00000099816   ⟸   ENSRNOT00000160393
Ensembl Acc Id: ENSRNOP00000101585   ⟸   ENSRNOT00000142668
Ensembl Acc Id: ENSRNOP00000100782   ⟸   ENSRNOT00000125905
Protein Domains
EF-hand   Follistatin-like   Kazal-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P24054-F1-model_v2 AlphaFold P24054 1-634 view protein structure

Transcriptome

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

Promoters
RGD ID:13699175
Promoter ID:EPDNEW_R9700
Type:initiation region
Name:Sparcl1_1
Description:SPARC like 1
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_6.0146,994,235 - 6,994,295EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2531 AgrOrtholog
BioCyc Gene G2FUF-16499 BioCyc
Ensembl Genes ENSRNOG00000015093 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000142668 ENTREZGENE
Gene3D-CATH 3.30.60.30 UniProtKB/Swiss-Prot
  EF-hand UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:5600008 IMAGE-MGC_LOAD
InterPro EF-hand-dom_pair UniProtKB/Swiss-Prot
  EF_Hand_1_Ca_BS UniProtKB/Swiss-Prot
  EF_hand_dom UniProtKB/Swiss-Prot
  Fol_N UniProtKB/Swiss-Prot
  Follistatin/Osteonectin_EGF UniProtKB/Swiss-Prot
  Kazal_dom UniProtKB/Swiss-Prot
  Kazal_dom_sf UniProtKB/Swiss-Prot
  Osteonectin_CS UniProtKB/Swiss-Prot
  SPARC-like_p1 UniProtKB/Swiss-Prot
  SPARC/Testican_Ca-bd-dom UniProtKB/Swiss-Prot
KEGG Report rno:25434 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72541 IMAGE-MGC_LOAD
NCBI Gene 25434 ENTREZGENE
PANTHER SPARC OSTEONECTIN UniProtKB/Swiss-Prot
  SPARC-LIKE PROTEIN 1 UniProtKB/Swiss-Prot
Pfam FOLN UniProtKB/Swiss-Prot
  Kazal_1 UniProtKB/Swiss-Prot
  SPARC_Ca_bdg UniProtKB/Swiss-Prot
PhenoGen Sparcl1 PhenoGen
PIRSF SPARC-like_p1 UniProtKB/Swiss-Prot
PROSITE EF_HAND_1 UniProtKB/Swiss-Prot
  EF_HAND_2 UniProtKB/Swiss-Prot
  KAZAL_2 UniProtKB/Swiss-Prot
  OSTEONECTIN_1 UniProtKB/Swiss-Prot
  OSTEONECTIN_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000015093 RatGTEx
SMART FOLN UniProtKB/Swiss-Prot
  KAZAL UniProtKB/Swiss-Prot
Superfamily-SCOP EGF/Laminin UniProtKB/Swiss-Prot
  SSF100895 UniProtKB/Swiss-Prot
  SSF47473 UniProtKB/Swiss-Prot
TIGR TC228820
UniProt A0ABK0L5K7_RAT UniProtKB/TrEMBL
  A0ABK0LDZ2_RAT UniProtKB/TrEMBL
  A0ABK0LG14_RAT UniProtKB/TrEMBL
  A6K5T4 ENTREZGENE, UniProtKB/TrEMBL
  G3V7X5_RAT UniProtKB/TrEMBL
  P24054 ENTREZGENE
  Q6P7A8 ENTREZGENE, UniProtKB/TrEMBL
  SPRL1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-09 Sparcl1  SPARC like 1  Sparcl1  SPARC-like 1 (hevin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-18 Sparcl1  SPARC-like 1 (hevin)  Sparcl1  SPARC-like 1 (mast9, hevin)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Sparcl1  SPARC-like 1 (mast9, hevin)    SPARC-like 1  Name updated 1299863 APPROVED
2002-11-06 Sparcl1  SPARC-like 1  Ecm2  Extracellular matrix protein 2  Symbol and Name updated 625702 APPROVED
2002-06-10 Ecm2  Extracellular matrix protein 2      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in brain and neurons during development and in adult 1298897
gene_homology has high similarity to extracellular matrix glycoprotein osteonectin/BM40/SPARC 1298897
gene_physical_interaction binds calcium 1298897
gene_product secreted glycoprotein 1298897