Ecm2 (extracellular matrix protein 2) - Rat Genome Database

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Gene: Ecm2 (extracellular matrix protein 2) Rattus norvegicus
Analyze
Symbol: Ecm2
Name: extracellular matrix protein 2
RGD ID: 2320282
Description: Predicted to enable collagen V binding activity and heparin binding activity. Predicted to act upstream of or within extracellular matrix organization and positive regulation of cell-substrate adhesion. Predicted to be located in interstitial matrix. Orthologous to human ECM2 (extracellular matrix protein 2); INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; bromobenzene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: extracellular matrix protein 2, female organ and adipocyte specific; extracellular matrix protein 2-like; LOC100361383; LOC100910978
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81715,326,359 - 15,358,938 (-)NCBIGRCr8
mRatBN7.21715,120,194 - 15,152,536 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1715,120,196 - 15,152,516 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01715,533,760 - 15,566,403 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1715,533,972 - 15,566,332 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01717,592,210 - 17,624,836 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41721,075,854 - 21,107,455 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1714,850,715 - 14,883,355 (-)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18757743  


Genomics

Comparative Map Data
Ecm2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81715,326,359 - 15,358,938 (-)NCBIGRCr8
mRatBN7.21715,120,194 - 15,152,536 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1715,120,196 - 15,152,516 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01715,533,760 - 15,566,403 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1715,533,972 - 15,566,332 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01717,592,210 - 17,624,836 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41721,075,854 - 21,107,455 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1714,850,715 - 14,883,355 (-)NCBICelera
Cytogenetic Map17p14NCBI
ECM2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38992,493,547 - 92,559,106 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl992,493,554 - 92,536,655 (-)EnsemblGRCh38hg38GRCh38
GRCh37995,255,829 - 95,298,272 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36994,297,420 - 94,338,073 (-)NCBINCBI36Build 36hg18NCBI36
Build 34992,337,153 - 92,377,807NCBI
Celera965,699,616 - 65,740,268 (-)NCBICelera
Cytogenetic Map9q22.31NCBI
HuRef964,933,268 - 64,976,692 (-)NCBIHuRef
CHM1_1995,402,248 - 95,444,814 (-)NCBICHM1_1
T2T-CHM13v2.09104,660,046 - 104,703,254 (-)NCBIT2T-CHM13v2.0
Ecm2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391349,658,259 - 49,686,267 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1349,658,286 - 49,686,265 (+)EnsemblGRCm39 Ensembl
GRCm381349,504,810 - 49,532,789 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1349,504,810 - 49,532,789 (+)EnsemblGRCm38mm10GRCm38
MGSCv371349,600,179 - 49,628,158 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361349,516,747 - 49,544,726 (+)NCBIMGSCv36mm8
Celera1350,595,283 - 50,623,262 (+)NCBICelera
Cytogenetic Map13A5NCBI
cM Map1325.29NCBI
Ecm2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555155,283,725 - 5,307,749 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555155,273,277 - 5,308,709 (+)NCBIChiLan1.0ChiLan1.0
ECM2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21146,891,955 - 46,934,692 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1946,894,863 - 46,937,033 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0963,617,088 - 63,659,055 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1991,689,304 - 91,731,291 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl991,691,721 - 91,718,230 (-)Ensemblpanpan1.1panPan2
ECM2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1198,832,107 - 98,865,084 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl198,832,677 - 98,864,700 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha199,225,966 - 99,258,611 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0199,448,946 - 99,481,590 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl199,448,993 - 99,481,691 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1199,062,018 - 99,094,661 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0198,797,495 - 98,830,420 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0199,553,430 - 99,587,072 (+)NCBIUU_Cfam_GSD_1.0
Ecm2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049447,901,376 - 7,933,934 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364872,116,604 - 2,150,398 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364872,117,226 - 2,150,382 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ECM2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl342,203,171 - 42,243,547 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1342,205,246 - 42,243,746 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2343,457,616 - 43,480,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ECM2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.112103,010,232 - 103,053,472 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl12103,011,749 - 103,053,678 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603891,282,537 - 91,325,754 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ecm2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248683,840,109 - 3,888,356 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248683,840,598 - 3,886,074 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ecm2
110 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17797996816317111Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920136523653323Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920136523653323Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920136523653323Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat
1549900Iddm20Insulin dependent diabetes mellitus QTL 203.7pancreas integrity trait (VT:0010560)percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)171398677321975515Rat

Markers in Region
BF405276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21715,144,206 - 15,144,380 (+)MAPPERmRatBN7.2
Rnor_6.01715,558,044 - 15,558,217NCBIRnor6.0
Rnor_5.01717,616,494 - 17,616,667UniSTSRnor5.0
RGSC_v3.41721,099,167 - 21,099,340UniSTSRGSC3.4
Celera1714,874,994 - 14,875,167UniSTS
RH 3.4 Map17174.9UniSTS
Cytogenetic Map17p14UniSTS
RH141814  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21715,121,081 - 15,122,214 (+)MAPPERmRatBN7.2
Rnor_6.01715,534,917 - 15,536,049NCBIRnor6.0
Rnor_6.01714,696,450 - 14,697,582NCBIRnor6.0
Rnor_5.01717,593,367 - 17,594,499UniSTSRnor5.0
Rnor_5.01716,748,774 - 16,749,906UniSTSRnor5.0
RGSC_v3.41721,076,040 - 21,077,172UniSTSRGSC3.4
Celera1714,851,872 - 14,853,004UniSTS
RH 3.4 Map17174.2UniSTS
Cytogenetic Map17p14UniSTS


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
Low 3 25 19 3 19 3 8 10 36 22 18 11 8
Below cutoff 10 24 24 24 1 36 11 18

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000043852   ⟹   ENSRNOP00000051031
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1715,533,972 - 15,555,919 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000071131   ⟹   ENSRNOP00000063949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1714,696,308 - 14,717,420 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000093743   ⟹   ENSRNOP00000076346
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1715,120,196 - 15,152,516 (-)Ensembl
Rnor_6.0 Ensembl1715,534,025 - 15,566,332 (-)Ensembl
RefSeq Acc Id: NM_001427107   ⟹   NP_001414036
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81715,326,359 - 15,358,855 (-)NCBI
RefSeq Acc Id: XM_006253742   ⟹   XP_006253804
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81715,327,324 - 15,358,938 (-)NCBI
mRatBN7.21715,120,194 - 15,152,536 (-)NCBI
Rnor_6.01715,533,760 - 15,566,403 (-)NCBI
Rnor_5.01717,592,210 - 17,624,836 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039096237   ⟹   XP_038952165
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81715,327,324 - 15,350,735 (-)NCBI
mRatBN7.21715,120,194 - 15,144,466 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001414036 (Get FASTA)   NCBI Sequence Viewer  
  XP_006253804 (Get FASTA)   NCBI Sequence Viewer  
  XP_038952165 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000076346.1
Reference Protein Sequences
RefSeq Acc Id: XP_006253804   ⟸   XM_006253742
- Peptide Label: isoform X2
- UniProtKB: A6J6W1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000051031   ⟸   ENSRNOT00000043852
RefSeq Acc Id: ENSRNOP00000076346   ⟸   ENSRNOT00000093743
RefSeq Acc Id: XP_038952165   ⟸   XM_039096237
- Peptide Label: isoform X1
- UniProtKB: D3ZS41 (UniProtKB/TrEMBL),   A6J6W1 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000063949   ⟸   ENSRNOT00000071131
RefSeq Acc Id: NP_001414036   ⟸   NM_001427107
- Peptide Label: precursor
- UniProtKB: D3ZS41 (UniProtKB/TrEMBL)
Protein Domains
VWFC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R3N1-F1-model_v2 AlphaFold M0R3N1 1-675 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2320282 AgrOrtholog
BioCyc Gene G2FUF-9996 BioCyc
Ensembl Genes ENSRNOG00000031716 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000045684 Ensembl
Ensembl Transcript ENSRNOT00000093743.2 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
  6.20.200.20 UniProtKB/TrEMBL
InterPro ECM2 UniProtKB/TrEMBL
  L_dom-like UniProtKB/TrEMBL
  Leu-rich_rpt UniProtKB/TrEMBL
  Leu-rich_rpt_typical-subtyp UniProtKB/TrEMBL
  VWF_C UniProtKB/TrEMBL
KEGG Report rno:100361383 UniProtKB/TrEMBL
NCBI Gene 100361383 ENTREZGENE
PANTHER EXTRACELLULAR MATRIX PROTEIN 2 UniProtKB/TrEMBL
  PTHR46544 UniProtKB/TrEMBL
Pfam LRR_8 UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
PhenoGen Ecm2 PhenoGen
PROSITE LRR UniProtKB/TrEMBL
  VWFC_1 UniProtKB/TrEMBL
  VWFC_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031716 RatGTEx
  ENSRNOG00000045684 RatGTEx
SMART LRR_TYP UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
Superfamily-SCOP FnI-like domain UniProtKB/TrEMBL
  L domain-like UniProtKB/TrEMBL
UniProt A6J6W1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZS41 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Ecm2  extracellular matrix protein 2  LOC100910978  extracellular matrix protein 2-like  Data merged from RGD:6495594 737654 PROVISIONAL
2016-03-22 Ecm2  extracellular matrix protein 2  Ecm2  extracellular matrix protein 2, female organ and adipocyte specific  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-07-23 Ecm2  extracellular matrix protein 2, female organ and adipocyte specific  LOC100361383  extracellular matrix protein 2-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100910978  extracellular matrix protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2010-05-05 LOC100361383  extracellular matrix protein 2-like      Symbol and Name status set to provisional 70820 PROVISIONAL