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

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Gene: SMC1A (structural maintenance of chromosomes 1A) Sus scrofa
Analyze
Symbol: SMC1A
Name: structural maintenance of chromosomes 1A
RGD ID: 13999754
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); INTERACTS WITH Monobutylphthalate
Type: protein-coding
RefSeq Status: MODEL
Previously known as: structural maintenance of chromosomes protein 1A
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction 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:17145712   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
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
(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
(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
(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

Variants

.
Variants in SMC1A
724 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 8 2 3 5 1 7 2 3 3
Low 2 2 1 16
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000013478   ⟹   ENSSSCP00000013117
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,144,920 - 46,202,138 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000028659   ⟹   ENSSSCP00000025247
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,160,163 - 46,195,364 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000033717   ⟹   ENSSSCP00000031085
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,160,168 - 46,202,111 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000035966   ⟹   ENSSSCP00000038825
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,162,568 - 46,218,543 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000039726   ⟹   ENSSSCP00000052867
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,160,163 - 46,202,107 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000065873   ⟹   ENSSSCP00000053743
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 EnsemblX46,158,734 - 46,202,148 (-)Ensembl
RefSeq Acc Id: XM_003135124   ⟹   XP_003135172
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X46,158,729 - 46,202,187 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005673650   ⟹   XP_005673707
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X46,143,738 - 46,202,132 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021080606   ⟹   XP_020936265
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1X46,158,725 - 46,202,148 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_003135172 (Get FASTA)   NCBI Sequence Viewer  
  XP_005673707 (Get FASTA)   NCBI Sequence Viewer  
  XP_020936265 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000013117
  ENSSSCP00000013117.3
  ENSSSCP00000031085
  ENSSSCP00000031085.2
  ENSSSCP00000038825.2
  ENSSSCP00000053743.1
  ENSSSCP00015033739.1
  ENSSSCP00015033943.1
  ENSSSCP00015034010.1
  ENSSSCP00015034107.1
  ENSSSCP00015034205.1
  ENSSSCP00025007237.1
  ENSSSCP00025007382.1
  ENSSSCP00025007403.1
  ENSSSCP00025007427.1
  ENSSSCP00025007468.1
  ENSSSCP00030012383.1
  ENSSSCP00030012400.1
  ENSSSCP00030012406.1
  ENSSSCP00030012416.1
  ENSSSCP00030012429.1
  ENSSSCP00035006805.1
  ENSSSCP00035006811.1
  ENSSSCP00035006815.1
  ENSSSCP00040032234.1
  ENSSSCP00040032336.1
  ENSSSCP00040032450.1
  ENSSSCP00045031952.1
  ENSSSCP00045032106.1
  ENSSSCP00045032290.1
  ENSSSCP00050014209.1
  ENSSSCP00050014212.1
  ENSSSCP00050014216.1
  ENSSSCP00055026157.1
  ENSSSCP00055026262.1
  ENSSSCP00055026355.1
  ENSSSCP00060036942.1
  ENSSSCP00060036965.1
  ENSSSCP00060036999.1
  ENSSSCP00065031139.1
  ENSSSCP00065031143.1
  ENSSSCP00065031148.1
  ENSSSCP00070007056.1
  ENSSSCP00070007082.1
  ENSSSCP00070007097.1
  ENSSSCP00070007105.1
  ENSSSCP00070007128.1
  ENSSSCP00070007145.1
  ENSSSCP00070007149.1
  ENSSSCP00070007164.1
GenBank Protein JAA53687 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_005673707   ⟸   XM_005673650
- Peptide Label: isoform X3
- UniProtKB: A0A4X1SXH8 (UniProtKB/TrEMBL),   A0A8D1LV62 (UniProtKB/TrEMBL),   K7GT43 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020936265   ⟸   XM_021080606
- Peptide Label: isoform X1
- UniProtKB: A0A4X1SXI1 (UniProtKB/TrEMBL),   F2Z5A8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_003135172   ⟸   XM_003135124
- Peptide Label: isoform X2
- UniProtKB: A0A287B9V7 (UniProtKB/TrEMBL),   A0A4X1SXG4 (UniProtKB/TrEMBL),   A0A287A4W4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000052867   ⟸   ENSSSCT00000039726
RefSeq Acc Id: ENSSSCP00000053743   ⟸   ENSSSCT00000065873
RefSeq Acc Id: ENSSSCP00000038825   ⟸   ENSSSCT00000035966
RefSeq Acc Id: ENSSSCP00000013117   ⟸   ENSSSCT00000013478
RefSeq Acc Id: ENSSSCP00000025247   ⟸   ENSSSCT00000028659
RefSeq Acc Id: ENSSSCP00000031085   ⟸   ENSSSCT00000033717
Protein Domains
SMC hinge


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000012325 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015060353 UniProtKB/TrEMBL
  ENSSSCG00025013086 UniProtKB/TrEMBL
  ENSSSCG00030019926 UniProtKB/TrEMBL
  ENSSSCG00035015066 UniProtKB/TrEMBL
  ENSSSCG00040055004 UniProtKB/TrEMBL
  ENSSSCG00045026542 UniProtKB/TrEMBL
  ENSSSCG00050025313 UniProtKB/TrEMBL
  ENSSSCG00055016311 UniProtKB/TrEMBL
  ENSSSCG00060062175 UniProtKB/TrEMBL
  ENSSSCG00065052123 UniProtKB/TrEMBL
  ENSSSCG00070004458 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000013478 ENTREZGENE
  ENSSSCT00000013478.4 UniProtKB/TrEMBL
  ENSSSCT00000033717 ENTREZGENE
  ENSSSCT00000033717.4 UniProtKB/TrEMBL
  ENSSSCT00000035966.4 UniProtKB/TrEMBL
  ENSSSCT00000065873.3 UniProtKB/TrEMBL
  ENSSSCT00015083362.1 UniProtKB/TrEMBL
  ENSSSCT00015083821.1 UniProtKB/TrEMBL
  ENSSSCT00015083949.1 UniProtKB/TrEMBL
  ENSSSCT00015084164.1 UniProtKB/TrEMBL
  ENSSSCT00015084347.1 UniProtKB/TrEMBL
  ENSSSCT00025018001.1 UniProtKB/TrEMBL
  ENSSSCT00025018267.1 UniProtKB/TrEMBL
  ENSSSCT00025018323.1 UniProtKB/TrEMBL
  ENSSSCT00025018377.1 UniProtKB/TrEMBL
  ENSSSCT00025018473.1 UniProtKB/TrEMBL
  ENSSSCT00030027729.1 UniProtKB/TrEMBL
  ENSSSCT00030027780.1 UniProtKB/TrEMBL
  ENSSSCT00030027789.1 UniProtKB/TrEMBL
  ENSSSCT00030027805.1 UniProtKB/TrEMBL
  ENSSSCT00030027824.1 UniProtKB/TrEMBL
  ENSSSCT00035019212.1 UniProtKB/TrEMBL
  ENSSSCT00035019221.1 UniProtKB/TrEMBL
  ENSSSCT00035019229.1 UniProtKB/TrEMBL
  ENSSSCT00040075109.1 UniProtKB/TrEMBL
  ENSSSCT00040075340.1 UniProtKB/TrEMBL
  ENSSSCT00040075598.1 UniProtKB/TrEMBL
  ENSSSCT00045046021.1 UniProtKB/TrEMBL
  ENSSSCT00045046274.1 UniProtKB/TrEMBL
  ENSSSCT00045046520.1 UniProtKB/TrEMBL
  ENSSSCT00050034167.1 UniProtKB/TrEMBL
  ENSSSCT00050034176.1 UniProtKB/TrEMBL
  ENSSSCT00050034186.1 UniProtKB/TrEMBL
  ENSSSCT00055032837.1 UniProtKB/TrEMBL
  ENSSSCT00055032972.1 UniProtKB/TrEMBL
  ENSSSCT00055033093.1 UniProtKB/TrEMBL
  ENSSSCT00060085391.1 UniProtKB/TrEMBL
  ENSSSCT00060085438.1 UniProtKB/TrEMBL
  ENSSSCT00060085533.1 UniProtKB/TrEMBL
  ENSSSCT00065071433.1 UniProtKB/TrEMBL
  ENSSSCT00065071439.1 UniProtKB/TrEMBL
  ENSSSCT00065071447.1 UniProtKB/TrEMBL
  ENSSSCT00070008573.1 UniProtKB/TrEMBL
  ENSSSCT00070008602.1 UniProtKB/TrEMBL
  ENSSSCT00070008620.1 UniProtKB/TrEMBL
  ENSSSCT00070008628.1 UniProtKB/TrEMBL
  ENSSSCT00070008655.1 UniProtKB/TrEMBL
  ENSSSCT00070008679.1 UniProtKB/TrEMBL
  ENSSSCT00070008686.1 UniProtKB/TrEMBL
  ENSSSCT00070008712.1 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
KEGG Report ssc:100523938 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 A0A287A4W4 ENTREZGENE, UniProtKB/TrEMBL
  A0A287B9V7 ENTREZGENE, UniProtKB/TrEMBL
  A0A287BB26_PIG UniProtKB/TrEMBL
  A0A4X1SVP6_PIG UniProtKB/TrEMBL
  A0A4X1SVR0_PIG UniProtKB/TrEMBL
  A0A4X1SXE0_PIG UniProtKB/TrEMBL
  A0A4X1SXG4 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SXH8 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SXI1 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1SXK3_PIG UniProtKB/TrEMBL
  A0A4X1SXL7_PIG UniProtKB/TrEMBL
  A0A8D1LV62 ENTREZGENE, UniProtKB/TrEMBL
  F2Z5A8 ENTREZGENE, UniProtKB/TrEMBL
  K7GT43 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:93236 ENTREZGENE