Smarcd2 (SWI/SNF related BAF chromatin remodeling complex subunit D2) - Rat Genome Database

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Gene: Smarcd2 (SWI/SNF related BAF chromatin remodeling complex subunit D2) Rattus norvegicus
Analyze
Symbol: Smarcd2
Name: SWI/SNF related BAF chromatin remodeling complex subunit D2 (Ensembl:SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2)
RGD ID: 69289
Description: Predicted to enable transcription coregulator activity. Predicted to be involved in nucleosome disassembly and regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of SWI/SNF complex. Predicted to be active in nucleus. Orthologous to human SMARCD2 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2); PARTICIPATES IN SWI/SNF family mediated chromatin remodeling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 60 kDa BRG-1/Brm-associated factor subunit B; BAF60b; BRG1-associated factor 60B; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81091,693,542 - 91,702,408 (-)NCBIGRCr8
mRatBN7.21091,193,752 - 91,202,817 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1091,193,752 - 91,204,341 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1096,248,444 - 96,257,304 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01095,711,613 - 95,720,473 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01091,122,191 - 91,131,051 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01094,451,866 - 94,460,732 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1094,451,866 - 94,460,732 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01094,203,168 - 94,212,034 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41095,656,976 - 95,665,842 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11095,671,345 - 95,680,212 (-)NCBI
Celera1089,869,638 - 89,878,504 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,4-dichlorobenzene  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2,4,6-tribromophenol  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
cadmium dichloride  (ISO)
captan  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
coumarin  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
Dibutyl phosphate  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
fenthion  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
folpet  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
methidathion  (ISO)
methimazole  (EXP)
oxaliplatin  (EXP)
oxycodone  (EXP)
ozone  (EXP)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
pirinixic acid  (ISO)
propiconazole  (ISO)
selenium atom  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triphenyl phosphate  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA,ISO)
nucleus  (IBA)
SWI/SNF complex  (IBA,IEA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Hargreaves DC and Crabtree GR, Cell Res. 2011 Mar;21(3):396-420. doi: 10.1038/cr.2011.32. Epub 2011 Mar 1.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. Gene structure of rat BAF60b, a component of mammalian SW1/SNF complexes, and its physical linkage to the growth hormone gene and transcription factor SUG/proteasome p45 gene. Nomoto K, etal., Gene 1997 Nov 20;202(1-2):157-65.
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
8. The spectrum of SWI/SNF mutations, ubiquitous in human cancers. Shain AH and Pollack JR, PLoS One. 2013;8(1):e55119. doi: 10.1371/journal.pone.0055119. Epub 2013 Jan 23.
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:8804307   PMID:8895581   PMID:11726552   PMID:12368262   PMID:12757710   PMID:15489334   PMID:16217013   PMID:24335282  


Genomics

Comparative Map Data
Smarcd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81091,693,542 - 91,702,408 (-)NCBIGRCr8
mRatBN7.21091,193,752 - 91,202,817 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1091,193,752 - 91,204,341 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1096,248,444 - 96,257,304 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01095,711,613 - 95,720,473 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01091,122,191 - 91,131,051 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01094,451,866 - 94,460,732 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1094,451,866 - 94,460,732 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01094,203,168 - 94,212,034 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41095,656,976 - 95,665,842 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11095,671,345 - 95,680,212 (-)NCBI
Celera1089,869,638 - 89,878,504 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
SMARCD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381763,832,081 - 63,842,685 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1763,832,081 - 63,843,065 (-)EnsemblGRCh38hg38GRCh38
GRCh371761,909,441 - 61,920,045 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361759,263,173 - 59,274,083 (-)NCBINCBI36Build 36hg18NCBI36
Build 341759,263,175 - 59,274,083NCBI
Celera1756,297,562 - 56,308,472 (-)NCBICelera
Cytogenetic Map17q23.3NCBI
HuRef1757,277,503 - 57,288,376 (-)NCBIHuRef
CHM1_11761,973,792 - 61,984,700 (-)NCBICHM1_1
T2T-CHM13v2.01764,702,930 - 64,713,532 (-)NCBIT2T-CHM13v2.0
Smarcd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911106,153,997 - 106,163,810 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11106,154,005 - 106,163,798 (-)EnsemblGRCm39 Ensembl
GRCm3811106,263,171 - 106,272,998 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11106,263,179 - 106,272,972 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711106,124,485 - 106,134,286 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611106,079,276 - 106,083,712 (-)NCBIMGSCv36mm8
Celera11117,993,625 - 118,003,459 (-)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1168.89NCBI
Smarcd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554787,985,021 - 7,996,843 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554787,984,736 - 7,996,843 (+)NCBIChiLan1.0ChiLan1.0
SMARCD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21980,003,704 - 80,014,581 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11784,821,171 - 84,832,050 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01757,911,612 - 57,922,461 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11763,055,968 - 63,068,885 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1763,055,968 - 63,068,861 (-)Ensemblpanpan1.1panPan2
SMARCD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1911,787,676 - 11,823,900 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl911,788,485 - 11,808,118 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha912,747,367 - 12,783,601 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0913,448,747 - 13,485,204 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl913,448,761 - 13,458,812 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1912,395,384 - 12,432,000 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0915,100,320 - 15,136,529 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0915,102,810 - 15,139,272 (+)NCBIUU_Cfam_GSD_1.0
Smarcd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560214,709,006 - 14,719,309 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365414,472,028 - 4,485,619 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365414,475,290 - 4,485,619 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMARCD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1215,091,729 - 15,101,899 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11215,091,926 - 15,101,899 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21215,083,307 - 15,092,204 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMARCD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11657,446,825 - 57,457,605 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1657,447,137 - 57,456,754 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607728,055,161 - 28,065,973 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smarcd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248491,354,822 - 1,367,217 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248491,354,821 - 1,367,269 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Smarcd2
14 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:561
Count of miRNA genes:266
Interacting mature miRNAs:334
Transcripts:ENSRNOT00000014508
Prediction methods:Microtar, Miranda, Rnahybrid, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108051528791230079Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
1579915Bp280Blood pressure QTL 2800.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090404397107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108256485692369470Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1072224939107211142Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107437208494965338Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076452683107211142Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)107877551698279596Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1082685200107211142Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107624608594965338Rat
2313856Bp342Blood pressure QTL 3424.40.0001life span trait (VT:0005372)age at time of death (CMO:0001193)108730761796121100Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107345313696120911Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072224939107211142Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087307617107211142Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
724530Bp149Blood pressure QTL 1490.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1090627439107211142Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1090627439107057807Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1064890616107211142Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1080515287101325465Rat
12880384Cm107Cardiac mass QTL 1070.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)90404397107211142Rat
12880385Cm108Cardiac mass QTL 1080.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)90404397107211142Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1081285008107211142Rat
12880396Am13Aortic mass QTL 130.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1090404397107211142Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107255241693995749Rat
12880398Kidm67Kidney mass QTL 670.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1090404397107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)108402232193995963Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
12880395Cm109Cardiac mass QTL 1090.001heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1090404397107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1088539139107211142Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1076748906107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108400727295933025Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1076246085107211142Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108400727295933025Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1085565469103884409Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107345313696120911Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087055121107211142Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat

Markers in Region
M60510  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,194,082 - 91,194,158 (+)MAPPERmRatBN7.2
Rnor_6.01094,452,197 - 94,452,272NCBIRnor6.0
Rnor_5.01094,203,499 - 94,203,574UniSTSRnor5.0
RGSC_v3.41095,657,307 - 95,657,382UniSTSRGSC3.4
Celera1089,869,969 - 89,870,044UniSTS
Cytogenetic Map10q32.1UniSTS
RH144361  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,195,990 - 91,196,096 (+)MAPPERmRatBN7.2
Rnor_6.01094,454,105 - 94,454,210NCBIRnor6.0
Rnor_5.01094,205,407 - 94,205,512UniSTSRnor5.0
RGSC_v3.41095,659,215 - 95,659,320UniSTSRGSC3.4
Celera1089,871,877 - 89,871,982UniSTS
RH 3.4 Map10981.7UniSTS
Cytogenetic Map10q32.1UniSTS
RH136975  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21091,193,419 - 91,193,688 (+)MAPPERmRatBN7.2
Rnor_6.01094,451,534 - 94,451,802NCBIRnor6.0
Rnor_5.01094,202,836 - 94,203,104UniSTSRnor5.0
RGSC_v3.41095,656,644 - 95,656,912UniSTSRGSC3.4
Celera1089,869,306 - 89,869,574UniSTS
Cytogenetic Map10q32.1UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000014508   ⟹   ENSRNOP00000014508
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1091,193,752 - 91,202,619 (-)Ensembl
Rnor_6.0 Ensembl1094,451,866 - 94,460,732 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094125   ⟹   ENSRNOP00000093107
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1091,193,752 - 91,202,433 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000108911   ⟹   ENSRNOP00000095674
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1091,193,752 - 91,204,341 (-)Ensembl
RefSeq Acc Id: NM_031983   ⟹   NP_114189
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81091,693,542 - 91,702,408 (-)NCBI
mRatBN7.21091,193,752 - 91,202,619 (-)NCBI
Rnor_6.01094,451,866 - 94,460,732 (-)NCBI
Rnor_5.01094,203,168 - 94,212,034 (-)NCBI
RGSC_v3.41095,656,976 - 95,665,842 (-)RGD
Celera1089,869,638 - 89,878,504 (-)RGD
Sequence:
RefSeq Acc Id: NP_114189   ⟸   NM_031983
- UniProtKB: O54771 (UniProtKB/Swiss-Prot),   O54772 (UniProtKB/Swiss-Prot),   A6HK23 (UniProtKB/TrEMBL),   A0A8L2Q6R2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014508   ⟸   ENSRNOT00000014508
Ensembl Acc Id: ENSRNOP00000095674   ⟸   ENSRNOT00000108911
Ensembl Acc Id: ENSRNOP00000093107   ⟸   ENSRNOT00000094125
Protein Domains
DM2   SWIB/MDM2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O54772-F1-model_v2 AlphaFold O54772 1-531 view protein structure

Transcriptome

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

Promoters
RGD ID:13697840
Promoter ID:EPDNEW_R8365
Type:initiation region
Name:Smarcd2_1
Description:SWI/SNF related, matrix associated, actin dependent regulatorof chromatin, subfamily d, member 2
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_6.01094,460,653 - 94,460,713EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69289 AgrOrtholog
BioCyc Gene G2FUF-22955 BioCyc
Ensembl Genes ENSRNOG00000010557 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014508.4 UniProtKB/TrEMBL
  ENSRNOT00000094125.1 UniProtKB/TrEMBL
  ENSRNOT00000108911.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.245.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5599204 IMAGE-MGC_LOAD
InterPro BAF60B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SWIB_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SWIB_MDM2_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SWIB_MDM2_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83833 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72377 IMAGE-MGC_LOAD
NCBI Gene 83833 ENTREZGENE
PANTHER PTHR13844:SF2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SWI/SNF-RELATED MATRIX-ASSOCIATED ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY D UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SWIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Smarcd2 PhenoGen
PROSITE SWIB_MDM2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000010557 RatGTEx
SMART SWIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47592 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC228307
UniProt A0A8I6AHZ9_RAT UniProtKB/TrEMBL
  A0A8I6APL3_RAT UniProtKB/TrEMBL
  A0A8L2Q6R2 ENTREZGENE, UniProtKB/TrEMBL
  A6HK23 ENTREZGENE, UniProtKB/TrEMBL
  A6HK24_RAT UniProtKB/TrEMBL
  O54771 ENTREZGENE
  O54772 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary O54771 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-11-08 Smarcd2  SWI/SNF related BAF chromatin remodeling complex subunit D2  Smarcd2  SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Smarcd2  SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_product component of the SW1/SNF complex 68855
gene_transcript 3.0 kb poly(A)-rich RNA with 13 exonsl; has five GC boxes that correspond to the Sp1 binding site 68855