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

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Gene: Smc4 (structural maintenance of chromosomes 4) Rattus norvegicus
Analyze
Symbol: Smc4
Name: structural maintenance of chromosomes 4
RGD ID: 1306680
Description: Predicted to enable chromatin binding activity and single-stranded DNA binding activity. Predicted to be involved in mitotic chromosome condensation; positive regulation of chromosome condensation; and regulation of chromosome segregation. Predicted to act upstream of or within kinetochore organization; meiotic chromosome condensation; and meiotic chromosome segregation. Predicted to be located in chromosome, centromeric region and condensed nuclear chromosome. Predicted to be part of condensin complex. Orthologous to human SMC4 (structural maintenance of chromosomes 4); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC295107; MGC125078; SMC4 structural maintenance of chromosomes 4-like 1; SMC4 structural maintenance of chromosomes 4-like 1 (yeast); Smc4l1; structural maintenance of chromosomes protein 4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82155,550,262 - 155,578,695 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2155,550,262 - 155,581,937 (+)EnsemblGRCr8
mRatBN7.22153,240,243 - 153,268,722 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2153,240,283 - 153,271,571 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2160,369,955 - 160,398,299 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02158,420,472 - 158,448,814 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02153,053,239 - 153,081,581 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02165,600,934 - 165,629,415 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2165,601,007 - 165,629,415 (+)Ensemblrn6Rnor6.0
Rnor_5.02184,962,125 - 184,990,525 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42158,987,318 - 159,015,705 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2147,591,084 - 147,619,494 (+)NCBICelera
RGSC_v3.12158,937,475 - 158,965,632 (+)NCBI
Cytogenetic Map2q32NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4,4'-trichlorobiphenyl  (ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-methylcholine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
antimycin A  (ISO)
aristolochic acid A  (ISO)
arsenous acid  (ISO)
azathioprine  (ISO)
benzene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbamazepine  (ISO)
CGP 52608  (ISO)
chloroprene  (EXP)
chlorpyrifos  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cordycepin  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
DDE  (ISO)
deguelin  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
diethyl maleate  (EXP)
dioxygen  (EXP)
doxorubicin  (ISO)
Enterolactone  (ISO)
ferroheme b  (ISO)
FR900359  (ISO)
genistein  (ISO)
geraniol  (ISO)
glucose  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
heme b  (ISO)
hydrogen peroxide  (ISO)
ivermectin  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
lucanthone  (ISO)
menadione  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
N-Nitrosopyrrolidine  (ISO)
nickel atom  (ISO)
okadaic acid  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
PCB138  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
progesterone  (ISO)
propanal  (ISO)
quercetin  (EXP)
resveratrol  (ISO)
rotenone  (EXP,ISO)
senecionine  (EXP)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tamibarotene  (ISO)
tebufenpyrad  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
trichloroethene  (EXP)
triphenyl phosphate  (EXP,ISO)
triptonide  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. GOA pipeline RGD automated data pipeline
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9789013   PMID:11136719   PMID:12477932   PMID:20139420   PMID:21795393   PMID:23531880   PMID:33450132  


Genomics

Comparative Map Data
Smc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82155,550,262 - 155,578,695 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2155,550,262 - 155,581,937 (+)EnsemblGRCr8
mRatBN7.22153,240,243 - 153,268,722 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2153,240,283 - 153,271,571 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx2160,369,955 - 160,398,299 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02158,420,472 - 158,448,814 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02153,053,239 - 153,081,581 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.02165,600,934 - 165,629,415 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2165,601,007 - 165,629,415 (+)Ensemblrn6Rnor6.0
Rnor_5.02184,962,125 - 184,990,525 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42158,987,318 - 159,015,705 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2147,591,084 - 147,619,494 (+)NCBICelera
RGSC_v3.12158,937,475 - 158,965,632 (+)NCBI
Cytogenetic Map2q32NCBI
SMC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383160,399,650 - 160,434,953 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3160,399,274 - 160,434,965 (+)Ensemblhg38GRCh38
GRCh373160,117,438 - 160,152,741 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363161,600,124 - 161,635,435 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38369,004,738 - 69,034,623 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl369,004,738 - 69,034,623 (+)Ensemblmm10GRCm38
MGSCv37368,808,894 - 68,838,545 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
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
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544810,927,877 - 10,960,624 (+)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3430,497,727 - 30,536,870 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03426,512,289 - 26,551,391 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_Cfam_GSD_1.0
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 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936708362,605 - 395,217 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13100,078,272 - 100,117,309 (+)EnsemblsusScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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 1.0HetGla 1.0hetGla2
Smc4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1386,275,819 - 86,304,229 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Smc4
559 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:17
Count of miRNA genes:12
Interacting mature miRNAs:17
Transcripts:ENSRNOT00000013931
Prediction methods:Miranda, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631566Bp90Blood pressure QTL 900.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2149957381221199885Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845370229470703Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283465462229820014Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)220695736231474293Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2138595962205135428Rat
1581576Pur7Proteinuria QTL 70.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)280396178220931218Rat
152025245Scl81Serum cholesterol level QTL 813.49blood cholesterol amount (VT:0000180)2124537199209621565Rat
1581578Cm49Cardiac mass QTL 494.90.01heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2145807215220931416Rat
631198Cm22Cardiac mass QTL 224.30.0008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)278269809208420281Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2122597372215234002Rat
12879836Kidm61Kidney mass QTL 610.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2154723085199723085Rat
1581569Uae32Urinary albumin excretion QTL 320.0001urine protein amount (VT:0005160)urine albumin excretion rate (CMO:0000757)280396178220931218Rat
10043136Iddm54Insulin dependent diabetes mellitus QTL 543.40.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2145807215190807215Rat
12879837Am2Aortic mass QTL 20.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2154723085199723085Rat
10043139Iddm55Insulin dependent diabetes mellitus QTL 553.10.0001blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)2150313808195313808Rat
12879838Cm86Cardiac mass QTL 860.002heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2154723085199723085Rat
12879839Cm85Cardiac mass QTL 850.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2154723085199723085Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
12879845Cm89Cardiac mass QTL 890.008heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)2154723085178247591Rat
1359030Bp277Blood pressure QTL 277arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2143565208188565208Rat
12879846Cm90Cardiac mass QTL 900.011heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)2154723085178247591Rat
12879847Am4Aortic mass QTL 40.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)2154723085178247591Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
12879840Bw179Body weight QTL 1790.005body mass (VT:0001259)body weight (CMO:0000012)2154723085199723085Rat
1581502Esta3Estrogen-induced thymic atrophy QTL 3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2139067258192287892Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
1582257Gluco21Glucose level QTL 213.10.0035blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2120039407159440891Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2144882354205135428Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)267845182205135428Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283400752223709938Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2139067258184067258Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660251712708Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)280396034220931416Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278269809205135428Rat
2301415Cm67Cardiac mass QTL 670.003heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)2154723085178247591Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2143344967251712708Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2143746578205135428Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2143344967251712708Rat
11565180Kidm56Kidney mass QTL 560.003kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2154723085178247591Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2114384617215381366Rat
1598805Memor8Memory QTL 83exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2150096616195096616Rat
11565181Bw176Body weight QTL 1760.002body mass (VT:0001259)body weight (CMO:0000012)2154723085178247591Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2145306936212705578Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2113746222205135428Rat
61401Niddm2Non-insulin dependent diabetes mellitus QTL 24.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2147287892192287892Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2114384617215381366Rat
738007Anxrr7Anxiety related response QTL 74.4exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2120339555165339555Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2151869660223841096Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2117415288205135428Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979159440891Rat
631520Bp73Blood pressure QTL 730.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2149806826170653323Rat
1598833Bp295Blood pressure QTL 2953.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2150096616195096616Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283465462225110681Rat
1558653Prcr1Prostate cancer resistance QTL 15prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)2114440891159440891Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)247856345205135428Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979184731399Rat
1354594Despr10Despair related QTL 102e-06locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)2116804572161804572Rat
152025206Hrtrt23Heart rate QTL 235.98heart pumping trait (VT:2000009)230219200171802126Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)276328396209350714Rat
6903312Bw112Body weight QTL 1123.20.0013body mass (VT:0001259)body weight (CMO:0000012)2145807215173074435Rat
152025204Hrtrt22Heart rate QTL 225.6heart pumping trait (VT:2000009)230219200171802126Rat

Markers in Region
RH134172  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22153,269,479 - 153,269,688 (+)MAPPERmRatBN7.2
Rnor_6.02165,630,173 - 165,630,381NCBIRnor6.0
Rnor_5.02184,991,283 - 184,991,491UniSTSRnor5.0
RGSC_v3.42159,016,463 - 159,016,671UniSTSRGSC3.4
Celera2147,620,252 - 147,620,460UniSTS
RH 3.4 Map21003.0UniSTS
Cytogenetic Map2q33UniSTS
Cytogenetic Map2q31UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000013931   ⟹   ENSRNOP00000013931
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2155,550,262 - 155,578,695 (+)Ensembl
mRatBN7.2 Ensembl2153,240,515 - 153,268,717 (+)Ensembl
Rnor_6.0 Ensembl2165,601,007 - 165,629,415 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000112113   ⟹   ENSRNOP00000093203
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2155,550,262 - 155,581,937 (+)Ensembl
mRatBN7.2 Ensembl2153,240,283 - 153,271,571 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000118419   ⟹   ENSRNOP00000079265
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2155,550,262 - 155,578,695 (+)Ensembl
mRatBN7.2 Ensembl2153,240,491 - 153,268,722 (+)Ensembl
RefSeq Acc Id: NM_001037185   ⟹   NP_001032262
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82155,550,262 - 155,578,695 (+)NCBI
mRatBN7.22153,240,283 - 153,268,722 (+)NCBI
Rnor_6.02165,601,007 - 165,629,415 (+)NCBI
Rnor_5.02184,962,125 - 184,990,525 (+)NCBI
RGSC_v3.42158,987,318 - 159,015,705 (+)RGD
Celera2147,591,084 - 147,619,494 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001032262 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI07945 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000013931.6
  ENSRNOP00000079265
  ENSRNOP00000079265.2
  ENSRNOP00000093203.1
RefSeq Acc Id: NP_001032262   ⟸   NM_001037185
- UniProtKB: F1MAD9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000013931   ⟸   ENSRNOT00000013931
Ensembl Acc Id: ENSRNOP00000093203   ⟸   ENSRNOT00000112113
Ensembl Acc Id: ENSRNOP00000079265   ⟸   ENSRNOT00000118419
Protein Domains
RecF/RecN/SMC N-terminal   SMC hinge

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1MAD9-F1-model_v2 AlphaFold F1MAD9 1-1286 view protein structure

Transcriptome

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

Promoters
RGD ID:13691370
Promoter ID:EPDNEW_R1895
Type:multiple initiation site
Name:Smc4_1
Description:structural maintenance of chromosomes 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02165,601,226 - 165,601,286EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306680 AgrOrtholog
BioCyc Gene G2FUF-52843 BioCyc
Ensembl Genes ENSRNOG00000010274 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013931.7 UniProtKB/TrEMBL
  ENSRNOT00000112113.2 UniProtKB/TrEMBL
  ENSRNOT00000118419 ENTREZGENE
  ENSRNOT00000118419.2 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 UniProtKB/TrEMBL
  SMC UniProtKB/TrEMBL
  SMC_hinge UniProtKB/TrEMBL
  SMC_hinge_sf UniProtKB/TrEMBL
NCBI Gene 295107 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
PhenoGen Smc4 PhenoGen
PIRSF SMC UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010274 RatGTEx
SMART SMC_hinge UniProtKB/TrEMBL
Superfamily-SCOP SMC_hinge UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
  Tropomyosin UniProtKB/TrEMBL
UniProt A0A8I5ZMN6_RAT UniProtKB/TrEMBL
  A0A8I6GK63_RAT UniProtKB/TrEMBL
  F1MAD9 ENTREZGENE, UniProtKB/TrEMBL
  Q32PX5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Smc4  structural maintenance of chromosomes 4  Smc4l1  SMC4 structural maintenance of chromosomes 4-like 1 (yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Smc4l1  SMC4 structural maintenance of chromosomes 4-like 1 (yeast)  Smc4l1_predicted  SMC4 structural maintenance of chromosomes 4-like 1 (yeast) (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Smc4l1_predicted  SMC4 structural maintenance of chromosomes 4-like 1 (yeast) (predicted)      Symbol and Name status set to approved 70820 APPROVED