SMC2 (structural maintenance of chromosomes 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: SMC2 (structural maintenance of chromosomes 2) Sus scrofa
Analyze
Symbol: SMC2
Name: structural maintenance of chromosomes 2
RGD ID: 13993552
Description: ENCODES a protein that exhibits ATP binding (inferred); ATP hydrolysis activity (inferred); chromatin binding (inferred); INVOLVED IN kinetochore organization (ortholog); meiotic chromosome condensation (ortholog); meiotic chromosome segregation (ortholog); ASSOCIATED WITH colon adenocarcinoma (ortholog); colorectal cancer (ortholog); Experimental Liver Cirrhosis (ortholog); FOUND IN chromosome (inferred); condensed chromosome (inferred); condensed nuclear chromosome (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: structural maintenance of chromosomes protein 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1245,410,147 - 245,475,929 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11245,409,559 - 245,459,032 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21274,583,155 - 274,632,093 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:22301074  


Genomics

Comparative Map Data
SMC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1245,410,147 - 245,475,929 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11245,409,559 - 245,459,032 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21274,583,155 - 274,632,093 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389104,088,263 - 104,141,419 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9104,094,260 - 104,141,419 (+)EnsemblGRCh38hg38GRCh38
GRCh379106,856,590 - 106,903,700 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369105,896,362 - 105,943,521 (+)NCBINCBI36Build 36hg18NCBI36
Build 349103,936,161 - 103,981,492NCBI
Celera977,361,453 - 77,408,608 (+)NCBICelera
Cytogenetic Map9q31.1NCBI
HuRef976,458,199 - 76,505,354 (+)NCBIHuRef
CHM1_19107,002,961 - 107,050,087 (+)NCBICHM1_1
T2T-CHM13v2.09116,267,420 - 116,315,130 (+)NCBIT2T-CHM13v2.0
Smc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39452,438,966 - 52,488,365 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl452,439,243 - 52,488,260 (+)EnsemblGRCm39 Ensembl
GRCm38452,439,221 - 52,488,365 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl452,439,243 - 52,488,260 (+)EnsemblGRCm38mm10GRCm38
MGSCv37452,452,121 - 52,501,132 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36452,460,349 - 52,509,360 (+)NCBIMGSCv36mm8
Celera452,415,636 - 52,464,543 (+)NCBICelera
Cytogenetic Map4B2NCBI
cM Map428.31NCBI
Smc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8571,592,428 - 71,648,636 (+)NCBIGRCr8
mRatBN7.2566,806,882 - 66,853,478 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl566,807,011 - 66,853,242 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx568,710,446 - 68,756,648 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0570,528,861 - 70,575,059 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0570,499,195 - 70,545,399 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0568,717,509 - 68,764,080 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl568,717,519 - 68,763,850 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0573,151,967 - 73,198,538 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4569,561,142 - 69,607,373 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1569,566,160 - 69,612,480 (+)NCBI
Celera560,812,631 - 60,858,839 (-)NCBICelera
Cytogenetic Map5q23NCBI
Smc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541922,245,843 - 22,294,508 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541922,245,843 - 22,294,508 (-)NCBIChiLan1.0ChiLan1.0
SMC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21135,245,512 - 35,293,674 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1935,248,110 - 35,296,043 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0975,273,163 - 75,323,486 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19103,402,526 - 103,449,949 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9103,402,967 - 103,449,949 (+)Ensemblpanpan1.1panPan2
SMC2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11160,091,728 - 60,155,295 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1160,091,457 - 60,151,442 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1158,551,880 - 58,615,431 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01161,224,131 - 61,287,560 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1161,224,153 - 61,282,017 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11159,747,900 - 59,811,305 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01159,760,321 - 59,823,705 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01160,447,777 - 60,511,198 (+)NCBIUU_Cfam_GSD_1.0
Smc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947175,259,249 - 175,308,528 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936793910,654 - 958,811 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936793909,663 - 958,883 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11235,377,381 - 35,423,218 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1235,374,947 - 35,423,364 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660357,188,249 - 7,235,374 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247587,268,474 - 7,317,919 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247587,267,024 - 7,318,930 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SMC2
1530 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 3 2 4 3
Low 7 2 3 1 2 23 2 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000005946   ⟹   ENSSSCP00000005799
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1245,410,148 - 245,461,888 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000005947   ⟹   ENSSSCP00000005800
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1245,410,146 - 245,484,780 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000043544   ⟹   ENSSSCP00000042965
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1245,411,190 - 245,475,929 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000064803   ⟹   ENSSSCP00000052886
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1245,410,147 - 245,460,103 (+)Ensembl
RefSeq Acc Id: XM_021066940   ⟹   XP_020922599
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11245,409,898 - 245,459,032 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021066949   ⟹   XP_020922608
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11245,409,559 - 245,459,032 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021066959   ⟹   XP_020922618
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11245,410,122 - 245,459,032 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020922608   ⟸   XM_021066949
- Peptide Label: isoform X1
- UniProtKB: A0A8D0PMS1 (UniProtKB/TrEMBL),   F1SP73 (UniProtKB/TrEMBL),   F1SRP0 (UniProtKB/TrEMBL),   A0A8D1N9A2 (UniProtKB/TrEMBL),   A0A8D1YN56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020922599   ⟸   XM_021066940
- Peptide Label: isoform X1
- UniProtKB: A0A8D0PMS1 (UniProtKB/TrEMBL),   F1SP73 (UniProtKB/TrEMBL),   F1SRP0 (UniProtKB/TrEMBL),   A0A8D1N9A2 (UniProtKB/TrEMBL),   A0A8D1YN56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020922618   ⟸   XM_021066959
- Peptide Label: isoform X2
- UniProtKB: A0A287B8N8 (UniProtKB/TrEMBL),   A0A8D0PN97 (UniProtKB/TrEMBL),   A0A8D1R4C1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000005800   ⟸   ENSSSCT00000005947
RefSeq Acc Id: ENSSSCP00000005799   ⟸   ENSSSCT00000005946
RefSeq Acc Id: ENSSSCP00000052886   ⟸   ENSSSCT00000064803
RefSeq Acc Id: ENSSSCP00000042965   ⟸   ENSSSCT00000043544
Protein Domains
SMC hinge


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000005403 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005023353 UniProtKB/TrEMBL
  ENSSSCG00015066711 UniProtKB/TrEMBL
  ENSSSCG00045016381 UniProtKB/TrEMBL
  ENSSSCG00050060724 UniProtKB/TrEMBL
  ENSSSCG00055017639 UniProtKB/TrEMBL
  ENSSSCG00065038874 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005946 ENTREZGENE
  ENSSSCT00000005946.4 UniProtKB/TrEMBL
  ENSSSCT00000043544 ENTREZGENE
  ENSSSCT00000043544.3 UniProtKB/TrEMBL
  ENSSSCT00000064803 ENTREZGENE
  ENSSSCT00000064803.3 UniProtKB/TrEMBL
  ENSSSCT00005036934.1 UniProtKB/TrEMBL
  ENSSSCT00005036960.1 UniProtKB/TrEMBL
  ENSSSCT00005036996.1 UniProtKB/TrEMBL
  ENSSSCT00005037004.1 UniProtKB/TrEMBL
  ENSSSCT00015089328.1 UniProtKB/TrEMBL
  ENSSSCT00015089395.1 UniProtKB/TrEMBL
  ENSSSCT00015089516.1 UniProtKB/TrEMBL
  ENSSSCT00045027859.1 UniProtKB/TrEMBL
  ENSSSCT00045028042.1 UniProtKB/TrEMBL
  ENSSSCT00050082728.1 UniProtKB/TrEMBL
  ENSSSCT00055034600.1 UniProtKB/TrEMBL
  ENSSSCT00055034783.1 UniProtKB/TrEMBL
  ENSSSCT00055034992.1 UniProtKB/TrEMBL
  ENSSSCT00065053139.1 UniProtKB/TrEMBL
  ENSSSCT00065053151.1 UniProtKB/TrEMBL
  ENSSSCT00065053156.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.1490 UniProtKB/TrEMBL
  1.20.1060.20 UniProtKB/TrEMBL
  3.30.70.1620 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro P-loop_NTPase UniProtKB/TrEMBL
  RecF/RecN/SMC_N UniProtKB/TrEMBL
  SMC UniProtKB/TrEMBL
  Smc2_ABC UniProtKB/TrEMBL
  SMC_hinge UniProtKB/TrEMBL
  SMC_hinge_sf UniProtKB/TrEMBL
NCBI Gene SMC2 ENTREZGENE
PANTHER STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN UniProtKB/TrEMBL
  STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN 3 UniProtKB/TrEMBL
Pfam SMC_hinge UniProtKB/TrEMBL
  SMC_N UniProtKB/TrEMBL
PIRSF SMC UniProtKB/TrEMBL
SMART SMC_hinge UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
  SSF75553 UniProtKB/TrEMBL
  Tropomyosin UniProtKB/TrEMBL
UniProt A0A287AGI4_PIG UniProtKB/TrEMBL
  A0A287B8N8 ENTREZGENE
  A0A8D0JD22_PIG UniProtKB/TrEMBL
  A0A8D0PMS1 ENTREZGENE
  A0A8D0PN97 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1N9A2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1R4C1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1YN56 ENTREZGENE, UniProtKB/TrEMBL
  F1SP73 ENTREZGENE
  F1SRP0 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A287B8N8 UniProtKB/TrEMBL
  A0A8D0PMS1 UniProtKB/TrEMBL
  F1SP73 UniProtKB/TrEMBL
VGNC ID VGNC:93238 ENTREZGENE