SMC1A (structural maintenance of chromosomes 1A) - Rat Genome Database

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Gene: SMC1A (structural maintenance of chromosomes 1A) Chlorocebus sabaeus
Analyze
Symbol: SMC1A
Name: structural maintenance of chromosomes 1A
RGD ID: 18682965
Description: ENCODES a protein that exhibits ATP binding (inferred); ATP hydrolysis activity (inferred); chromatin binding (inferred); INVOLVED IN meiotic cell cycle (ortholog); somatic stem cell population maintenance (ortholog); ASSOCIATED WITH adenoid cystic carcinoma (ortholog); Atkin Syndrome (ortholog); autistic disorder (ortholog); FOUND IN lateral element (ortholog); mitotic cohesin complex (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: structural maintenance of chromosomes protein 1A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X49,514,652 - 49,558,490 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX49,515,061 - 49,558,447 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660863,466,124 - 3,511,145 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SMC1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X49,514,652 - 49,558,490 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX49,515,061 - 49,558,447 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660863,466,124 - 3,511,145 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SMC1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X53,374,149 - 53,422,728 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX53,374,149 - 53,422,728 (-)EnsemblGRCh38hg38GRCh38
GRCh37X53,401,070 - 53,449,677 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X53,417,795 - 53,466,343 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X53,284,090 - 53,332,639NCBI
CeleraX57,232,626 - 57,281,175 (-)NCBICelera
Cytogenetic MapXp11.22NCBI
HuRefX50,459,360 - 50,507,305 (-)NCBIHuRef
CHM1_1X53,391,525 - 53,440,144 (-)NCBICHM1_1
T2T-CHM13v2.0X52,660,456 - 52,709,071 (-)NCBIT2T-CHM13v2.0
Smc1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X150,799,386 - 150,844,969 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX150,799,424 - 150,845,690 (+)EnsemblGRCm39 Ensembl
GRCm38X152,016,428 - 152,061,973 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX152,016,428 - 152,062,694 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X148,450,971 - 148,496,516 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X147,357,144 - 147,402,683 (+)NCBIMGSCv36mm8
CeleraX132,369,172 - 132,413,610 (-)NCBICelera
Cytogenetic MapXF3NCBI
cM MapX68.46NCBI
Smc1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X24,582,732 - 24,627,462 (+)NCBIGRCr8
mRatBN7.2X21,103,323 - 21,148,053 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX21,103,282 - 21,148,056 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX18,580,342 - 18,625,072 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X21,498,503 - 21,543,222 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X21,668,965 - 21,713,695 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X21,710,976 - 21,755,708 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX21,711,019 - 21,755,525 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X21,691,592 - 21,736,383 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X41,503,393 - 41,547,830 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X41,556,861 - 41,601,299 (+)NCBI
CeleraX21,378,634 - 21,423,365 (+)NCBICelera
Cytogenetic MapXq13NCBI
Smc1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955475421,409 - 468,324 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955475421,472 - 468,286 (-)NCBIChiLan1.0ChiLan1.0
SMC1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X54,760,686 - 54,821,872 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X54,764,274 - 54,825,412 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X45,576,100 - 45,637,314 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X53,697,154 - 53,745,641 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX53,697,154 - 53,745,636 (-)Ensemblpanpan1.1panPan2
SMC1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X45,099,312 - 45,148,103 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX45,109,653 - 45,148,001 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX36,633,229 - 36,682,028 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X45,424,145 - 45,472,953 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX45,427,836 - 45,472,912 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X44,919,324 - 44,968,108 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X45,368,982 - 45,417,772 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X45,436,314 - 45,485,351 (-)NCBIUU_Cfam_GSD_1.0
Smc1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X37,992,636 - 38,049,030 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936751349,597 - 388,755 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936751332,351 - 388,756 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMC1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX46,144,920 - 46,218,543 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X46,143,738 - 46,202,187 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X51,643,473 - 51,702,113 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Smc1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624909630,062 - 668,512 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624909617,015 - 668,513 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 14 60
Low 6
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000010657   ⟹   ENSCSAP00000008746
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 EnsemblX49,515,061 - 49,558,447 (-)Ensembl
RefSeq Acc Id: XM_037994921   ⟹   XP_037850849
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660863,466,124 - 3,511,145 (-)NCBI
RefSeq Acc Id: XM_037994922   ⟹   XP_037850850
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_0236660863,466,124 - 3,511,091 (-)NCBI
Protein Sequences
Protein RefSeqs XP_037850849 (Get FASTA)   NCBI Sequence Viewer  
  XP_037850850 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000008746.1
Reference Protein Sequences
RefSeq Acc Id: ENSCSAP00000008746   ⟸   ENSCSAT00000010657
RefSeq Acc Id: XP_037850849   ⟸   XM_037994921
- Peptide Label: isoform X1
RefSeq Acc Id: XP_037850850   ⟸   XM_037994922
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RJF7 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012563 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000010657.1 UniProtKB/TrEMBL
Gene3D-CATH 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
  Smc1_ABC UniProtKB/TrEMBL
  SMC_hinge UniProtKB/TrEMBL
  SMC_hinge_sf UniProtKB/TrEMBL
NCBI Gene SMC1A ENTREZGENE
PANTHER PTHR18937:SF170 UniProtKB/TrEMBL
  STRUCTURAL MAINTENANCE OF CHROMOSOMES SMC FAMILY MEMBER 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
UniProt A0A0D9RJF7 ENTREZGENE, UniProtKB/TrEMBL