Smc4 (structural maintenance of chromosomes 4) - Rat Genome Database

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Gene: Smc4 (structural maintenance of chromosomes 4) Ictidomys tridecemlineatus
Analyze
Symbol: Smc4
Name: structural maintenance of chromosomes 4
RGD ID: 12467646
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 genetic disease (ortholog); FOUND IN chromosome (inferred); chromosome, centromeric region (inferred); condensed nuclear chromosome (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: structural maintenance of chromosomes 4, transcript variant X1; structural maintenance of chromosomes 4, transcript variant X2; structural maintenance of chromosomes protein 4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560292,324,990 - 92,357,575 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936708362,603 - 395,246 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936708362,605 - 395,217 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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:22301074   PMID:30032202  


Genomics

Comparative Map Data
Smc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560292,324,990 - 92,357,575 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936708362,603 - 395,246 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936708362,605 - 395,217 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383160,399,650 - 160,434,953 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3160,399,274 - 160,434,954 (+)EnsemblGRCh38hg38GRCh38
GRCh373160,117,438 - 160,152,741 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363161,600,124 - 161,635,435 (+)NCBINCBI36Build 36hg18NCBI36
Build 343161,601,048 - 161,635,441NCBI
Celera3158,538,797 - 158,574,108 (+)NCBICelera
Cytogenetic Map3q25.33NCBI
HuRef3157,516,012 - 157,551,312 (+)NCBIHuRef
CHM1_13160,080,319 - 160,115,628 (+)NCBICHM1_1
T2T-CHM13v2.03163,174,262 - 163,209,567 (+)NCBIT2T-CHM13v2.0
Smc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39368,912,071 - 68,941,956 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl368,912,071 - 68,941,956 (+)EnsemblGRCm39 Ensembl
GRCm38369,004,738 - 69,034,623 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl369,004,738 - 69,034,623 (+)EnsemblGRCm38mm10GRCm38
MGSCv37368,808,894 - 68,838,545 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36369,092,901 - 69,122,552 (+)NCBIMGSCv36mm8
Celera364,413,138 - 64,415,057 (-)NCBICelera
Celera369,112,776 - 69,139,670 (+)NCBICelera
Cytogenetic Map3E1NCBI
cM Map332.14NCBI
Smc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82155,550,262 - 155,578,695 (+)NCBIGRCr8
mRatBN7.22153,240,243 - 153,268,722 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2153,240,283 - 153,271,571 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2160,369,955 - 160,398,299 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02158,420,472 - 158,448,814 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02153,053,239 - 153,081,581 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02165,600,934 - 165,629,415 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2165,601,007 - 165,629,415 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02184,962,125 - 184,990,525 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42158,987,318 - 159,015,705 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12158,937,475 - 158,965,632 (+)NCBI
Celera2147,591,084 - 147,619,494 (+)NCBICelera
Cytogenetic Map2q32NCBI
Smc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544810,927,877 - 10,960,624 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544810,926,653 - 10,960,624 (+)NCBIChiLan1.0ChiLan1.0
SMC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22158,335,746 - 158,371,161 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13158,340,798 - 158,375,896 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03157,421,548 - 157,456,593 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13165,469,567 - 165,504,967 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3165,469,567 - 165,504,967 (+)Ensemblpanpan1.1panPan2
SMC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13426,455,630 - 26,495,392 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3426,456,142 - 26,494,725 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3430,497,727 - 30,536,870 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03426,512,289 - 26,551,391 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3426,512,355 - 26,551,390 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13426,441,927 - 26,481,068 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03426,402,626 - 26,441,727 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03426,642,712 - 26,681,816 (+)NCBIUU_Cfam_GSD_1.0
SMC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13100,078,272 - 100,117,309 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113100,078,149 - 100,120,907 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213108,383,177 - 108,422,236 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11530,405,713 - 30,441,943 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1530,403,826 - 30,441,935 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660412,925,963 - 2,961,906 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473038,145,101 - 38,178,788 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000005010   ⟹   ENSSTOP00000004494
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936708362,603 - 395,246 (+)Ensembl
RefSeq Acc Id: XM_005338289   ⟹   XP_005338346
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560292,324,990 - 92,357,575 (+)NCBI
SpeTri2.0NW_004936708362,605 - 395,217 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021735233   ⟹   XP_021590908
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440560292,324,990 - 92,357,575 (+)NCBI
SpeTri2.0NW_004936708362,605 - 395,217 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005338346 (Get FASTA)   NCBI Sequence Viewer  
  XP_021590908 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000004494.2
GenBank Protein KAG3270928 (Get FASTA)   NCBI Sequence Viewer  
  KAG3270929 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005338346   ⟸   XM_005338289
- UniProtKB: I3M5A5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_021590908   ⟸   XM_021735233
- UniProtKB: I3M5A5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000004494   ⟸   ENSSTOT00000005010
Protein Domains
SMC hinge


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000004993 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000005010.3 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
  SMC_hinge UniProtKB/TrEMBL
  SMC_hinge_sf UniProtKB/TrEMBL
NCBI Gene Smc4 ENTREZGENE
PANTHER STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN 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
  Tropomyosin UniProtKB/TrEMBL
UniProt I3M5A5 ENTREZGENE, UniProtKB/TrEMBL