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Gene: Smc1b (structural maintenance of chromosomes 1B) Rattus norvegicus

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Symbol:

Smc1b

Name:

structural maintenance of chromosomes 1B

RGD ID:

1308791

Description:

Predicted to enable DNA binding activity. Predicted to be involved in sister chromatid cohesion. Predicted to act upstream of or within meiotic cell cycle. Predicted to be located in chromosome, centromeric region and lateral element. Predicted to be part of meiotic cohesin complex. Predicted to be active in nucleus. Orthologous to human SMC1B (structural maintenance of chromosomes 1B); PARTICIPATES IN cell cycle pathway, mitotic; INTERACTS WITH 17alpha-ethynylestradiol (ortholog); 2,3,7,8-tetrachlorodibenzodioxine (ortholog); 4-nitrophenol (ortholog).

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC300121; SMC; SMC (structural maintenace of chromosomes 1)-like 2 (S. cerevisiae); Smc1l2; structural maintenace of chromosomes 1B; structural maintenance of chromosomes protein 1B

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	SMC1B (structural maintenance of chromosomes 1B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Smc1b (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Smc1b (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SMC1B (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SMC1B (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Smc1b (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SMC1B (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SMC1B (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Smc1b (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Smc1b (structural maintenance of chromosomes 1B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SMC1B (structural maintenance of chromosomes 1B)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Smc1b (structural maintenance of chromosomes 1B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	smc1b (structural maintenance of chromosomes 1B)	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	him-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	SMC1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	SMC1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	smc1b	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	smc1b	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	118,060,898 - 118,122,683 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	118,060,156 - 118,122,648 (-)	Ensembl				GRCr8
mRatBN7.2	7	116,180,987 - 116,242,778 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	116,180,987 - 116,242,744 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	117,931,824 - 117,993,602 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	120,157,559 - 120,219,338 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	120,126,999 - 120,188,777 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	125,966,480 - 126,028,287 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	125,966,480 - 126,028,279 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	125,680,603 - 125,742,470 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	123,078,896 - 123,140,078 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	112,479,432 - 112,540,909 (-)	NCBI		Celera
RGSC_v3.1	7	123,113,384 - 123,174,335 (-)	NCBI
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

hereditary breast ovarian cancer syndrome (ISO)

myoepithelioma (ISO)

primary ovarian insufficiency 16 (ISO)

urinary bladder cancer (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17alpha-ethynylestradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

4-nitrophenol (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

Bisphenol A diglycidyl ether (ISO)

bisphenol AF (ISO)

bisphenol F (ISO)

cadmium dichloride (ISO)

CGP 52608 (ISO)

enzyme inhibitor (ISO)

glyphosate (ISO)

GSK-J4 (ISO)

lead diacetate (ISO)

lead(0) (ISO)

mono(2-ethylhexyl) phthalate (ISO)

niclosamide (ISO)

titanium dioxide (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromosome organization (IEA)

meiotic cell cycle (IEA,ISO)

sister chromatid cohesion (IBA,IEA,ISO)

Cellular Component

chromosome (IEA)

chromosome, centromeric region (IEA,ISO)

cohesin complex (IEA)

condensed nuclear chromosome (IEA,ISO)

lateral element (IEA,ISO)

meiotic cohesin complex (IBA,IEA,ISO)

nuclear lumen (IEA)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA)

synaptonemal complex (IEA,ISO)

Molecular Function

ATP binding (IEA)

ATP hydrolysis activity (IEA)

DNA binding (IBA,IEA,ISO)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

cell cycle pathway, mitotic (IEA)

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 MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
4.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:11564881	PMID:12759374	PMID:15870106	PMID:16968740	PMID:21242291	PMID:21527826	PMID:21743440	PMID:22164254	PMID:22711701

Genomics

Comparative Map Data

Smc1b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	118,060,898 - 118,122,683 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	7	118,060,156 - 118,122,648 (-)	Ensembl				GRCr8
mRatBN7.2	7	116,180,987 - 116,242,778 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	116,180,987 - 116,242,744 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	7	117,931,824 - 117,993,602 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	120,157,559 - 120,219,338 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	120,126,999 - 120,188,777 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	125,966,480 - 126,028,287 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	125,966,480 - 126,028,279 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	7	125,680,603 - 125,742,470 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	7	123,078,896 - 123,140,078 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	7	112,479,432 - 112,540,909 (-)	NCBI		Celera
RGSC_v3.1	7	123,113,384 - 123,174,335 (-)	NCBI
Cytogenetic Map	7	q34	NCBI

SMC1B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	45,344,063 - 45,413,599 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	22	45,344,063 - 45,413,619 (-)	Ensembl			hg38	GRCh38
GRCh37	22	45,739,944 - 45,809,480 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	44,118,608 - 44,188,164 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	22	44,060,894 - 44,130,037	NCBI
Celera	22	29,651,346 - 29,720,883 (-)	NCBI		Celera
Cytogenetic Map	22	q13.31	NCBI
HuRef	22	28,686,036 - 28,755,615 (-)	NCBI		HuRef
CHM1_1	22	45,698,500 - 45,768,222 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	22	45,828,963 - 45,898,486 (-)	NCBI		T2T-CHM13v2.0

Smc1b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	84,948,890 - 85,016,158 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	84,948,890 - 85,016,165 (-)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	15	85,064,689 - 85,131,957 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	85,064,689 - 85,131,964 (-)	Ensembl			mm10	GRCm38
MGSCv37	15	84,895,119 - 84,962,387 (-)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	15	84,892,455 - 84,959,723 (-)	NCBI		MGSCv36	mm8
Celera	15	87,196,889 - 87,264,479 (-)	NCBI		Celera
Cytogenetic Map	15	E2	NCBI
cM Map	15	40.25	NCBI

Smc1b
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955413	29,709,473 - 29,765,043 (-)	Ensembl
ChiLan1.0	NW_004955413	29,709,473 - 29,765,043 (-)	NCBI	ChiLan1.0	ChiLan1.0

SMC1B
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	23	55,169,108 - 55,239,206 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	22	57,863,009 - 57,934,651 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	22	26,229,904 - 26,299,559 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	22	44,410,118 - 44,479,517 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	44,410,118 - 44,479,513 (-)	Ensembl			panPan2	panpan1.1

SMC1B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	20,640,695 - 20,711,853 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	20,640,187 - 20,711,822 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	20,561,184 - 20,632,316 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	21,374,976 - 21,444,136 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	21,374,479 - 21,443,749 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	21,093,641 - 21,164,729 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	21,407,487 - 21,478,616 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	21,587,603 - 21,658,751 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Smc1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404945	4,315,360 - 4,389,703 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936629	4,315,401 - 4,389,069 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936629	4,315,401 - 4,389,318 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMC1B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	3,976,140 - 4,067,395 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	5	3,976,098 - 4,067,148 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	1,387,332 - 1,449,294 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SMC1B
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	19	27,814,944 - 27,879,692 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	19	27,815,442 - 27,879,640 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666045	97,455,883 - 97,520,083 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Smc1b
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624752	4,255,897 - 4,320,665 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624752	4,255,829 - 4,320,257 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Smc1b
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	254,439,876 - 254,502,387 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Smc1b
313 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	212
Count of miRNA genes:	153
Interacting mature miRNAs:	171
Transcripts:	ENSRNOT00000044883
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	92388565	119280177	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	82111245	123048330	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	104186212	135371468	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	73618702	118618702	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	93302009	131686183	Rat
61397	Bw17	Body weight QTL 17	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	7	95485047	137014596	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	115313999	136544683	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	46307490	127866166	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	85043242	130043242	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	85497398	130497398	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	92362341	137014596	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	83626689	128626689	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	82111382	132099989	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	98549867	137014596	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
631201	Panci1	Pancreas inflammation QTL 1	0	0.001	pancreas integrity trait (VT:0010560)	percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)	7	73557047	118557047	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	82111245	123048330	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	40540077	123682549	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	96700404	118618702	Rat
1331748	Bp215	Blood pressure QTL 215	4.043		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	110725024	135371468	Rat
61428	Scl3	Serum cholesterol level QTL 3	3.2		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	7	100548246	137014596	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	82111245	134948181	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	77807807	122807807	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	116269196	132020414	Rat
10402855	Bp379	Blood pressure QTL 379		0.21	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	78682549	123682549	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	71621154	119349044	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	71827901	136544683	Rat

Markers in Region

BF389603

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	116,181,273 - 116,182,560 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	125,966,767 - 125,968,052	NCBI	Rnor6.0
Rnor_5.0	7	125,680,890 - 125,682,175	UniSTS	Rnor5.0
RGSC_v3.4	7	123,079,183 - 123,080,468	UniSTS	RGSC3.4
Celera	7	112,479,719 - 112,481,004	UniSTS
RH 3.4 Map	7	909.8	UniSTS
Cytogenetic Map	7	q34	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

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alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
10	4	15	73	33	41	21	16	21	92	32	2	77	25	83	20	7	7

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001130498	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008765687	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063263329	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000044883 ⟹ ENSRNOP00000043834

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	118,060,898 - 118,122,648 (-)	Ensembl
mRatBN7.2 Ensembl	7	116,180,987 - 116,242,744 (-)	Ensembl
Rnor_6.0 Ensembl	7	125,966,480 - 126,028,279 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000102718 ⟹ ENSRNOP00000082988

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	118,060,898 - 118,122,648 (-)	Ensembl
mRatBN7.2 Ensembl	7	116,180,992 - 116,242,744 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000127457 ⟹ ENSRNOP00000099099

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	7	118,060,156 - 118,122,648 (-)	Ensembl

RefSeq Acc Id:

NM_001130498 ⟹ NP_001123970

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	118,060,898 - 118,122,648 (-)	NCBI
mRatBN7.2	7	116,180,987 - 116,242,744 (-)	NCBI
Rnor_6.0	7	125,966,480 - 126,028,252 (-)	NCBI
Rnor_5.0	7	125,680,603 - 125,742,470 (-)	NCBI
RGSC_v3.4	7	123,078,896 - 123,140,078 (-)	RGD
Celera	7	112,479,432 - 112,540,909 (-)	RGD

Sequence:

show sequence

CGGCTGAGGCACGGAGCGCAGCCATGGGGCACCTTGAGTTGCTGCTCGTGGAGAATTTCAAGTC
GTGGCGAGGCCGCCAGGTCATCGGCCCTTTCAAGAGGTTCACCTGTATCATCGGCCCCAACGGC
TCGGGAAAGTCTAATGTAATGGATGCACTTAGTTTTGTAATGGGAGAAAAAACAACTAATTTAA
GAGTAAAAAACATTCAAGAACTTATTCATGGAGCACACATTGGAAAACCTGTTTCTTCTTCTGC
AAGTGTGACCATTATATACGTAGAAGACAGTGGAGAAGAGAAAACATTCACAAGGATTATCCGA
GGGGGGTGCTCAGAATTTCATTTTGGGGATAAACCTGTGAGTCGTTCTGTGTATGTAGCCCAGT
TGGAAAACATAGGCATAATAGTCAAAGCACAGAACTGTCTAGTTTTTCAGGGAACTGTAGAGTC
AATATCCATGAAAAAACCCAAAGAGAGAACCCAATTTTTTGAAGAAATCAGTACTTCAGGAGAG
TTTATAGGAGAATATGAGGCAAAGAAAAAGAAGTTACAAAAAGCCGAAGAAGATGCACAATTTC
ATTTTAACAGGAAAAAAAATGTAGCTGCAGAACGGAAGCATGCAAAAATAGAGAAAGAAGAGGC
AGAACATTATCAAAGTCTCCTTGAAGAATTGAAAACAAACAAGATACAACTGATGCTTTTCCAA
CTATATTATAATGAGGAAAAAATCAATGTTTTAAACACTGAATTAGAGCATATGGACAGGAATT
TAAGTGTTGTAAAAGACACTCTTTCTCACCATGAAAACATAATTAAAGCTAAGAAAAAGGATTA
TGGAATGTTAACTAGACAACTACAGCAAACAGCAAAAGAACTGAAATCTGTCGAAGCAGTTTTA
AATCAGAAGAGGCCTCAGTACATTAAAGCTAAAGAAAACACTTCTCACCATCTAAAAAAATTGG
ATTTGTCTAAGAAATTGATAACAGACAATGAAAAACAATGTGCTAAGCAGGAAGATGGCATTCG
AGCCTTAGTGGCAGAACTGGTTGATTTAGATAGAGCATGGAGAAGTTTTGAAAAGCAGATGGAA
GAGAAAATCTTACACAAAGGAAGAGACATTGAATTGGAAAATAGTCAGCTGGACCGTTATAAAG
AGCTTAAGGAACAAGTCAGACGGAGGGTAGGTATAATGACACAACAACTGGAAAAACTACAGTG
GGAACAGAAGGCAGAAAAAGAAAGACTGGCATTTGAAAGGAGGAGGCATGGAGACACTCAGGGA
AATCTAAAACAAATAAAAGAACAAATAGAAGAGCATAAAAAACGAATAGAGAAATTGGAGGAAT
ATACAAAGACGTGCATGGATTGCTTGGAAGATAAAAAACAGCAAGAAGAAGCCCTGATAAAAGA
AATTGACAATACAAAATCAAGAATGTCTGAAGTTAATGAAGAATTGAGTCTTATTAGAAATGAA
TTGCAGAATGCTGGAATTGATAACCATGAAGGAAAACGTCAGCGGAAAAGAGCAGAAGTTCTCG
AACACCTTAAAAGACTTTACCCAGATTCTGTGTTTGGAAGACTTCTTGATCTATGTCATCCTAT
TCATAAGAAATACCAGCTGGCTGTGACTAAGCTTTTTGGCCGGTACATGGTTGCCATTGTTGTT
GCCTCAGAAAAGGTAGCAAAAGATTGTATTCGGTTTCTGAAGGAGGAAAGAGCTGAACCTGAGA
CATTCCTTGCTCTAGATTACCTTGATATCAAGCCAATCAATGAACGACTAAGGGAAATTAAAGG
CTGTAAGATGATGATCGATGTTATAAAGACCCAGTTTCCTCAGCTGAAGAAAGTGATTCAGTTT
GTTTGTGGAAATGGCCTTGTCTGTGAGACTGTGGAAGAGGCAAGACATATTGCATTTGGTGGAC
CTGAAAGACGAAAGGCAGTAGCACTTGATGGAACACTGTTTTTGAAATCTGGAGTGATCTCAGG
AGGGTCAAGTGACTTAAAGCACAAAGCTCTGTGTTGGGATGAGAAGGAGTTACACAGTCTAAGA
GATAAAAGAAACCAACTTGTCCAAGAGCTAAAGGAGTTAATGAAGACGCTCCGCAAGGAAACAG
ATCTGAAACAAATACAGGCATTAGTACAAGGAACCAATACACGACTCAAATATTCACAAAATGA
ACTAGAGATGATTAAAAAGAAGCACCTTGCTACATTTTACCGGGAACAATCTCAGCTACAAAGT
GAATTACTGAATATTGATTCTCAGTGTACAATGTTGAGCGAAGGAATCAACAAACAGCAACAAA
AGATTGAAGAATTTCAAGATAAGATAGACAAGGTAGAAGATGACATATTCCAAGACTTCTGTGA
AGAAATTGGTGTGGAAAATATCCGTGAATTTGAGAACAAACATGTTAAACAGCAGCAAGAAAAT
GATCAAAAAAGATTAGAGTTTGAAAAACAAAAAACTCGGCTCAATATTCAGCTTGAATATAGTC
GAAATCAACTTAAGAAGAAACTGAATAAGATCGACACATTAAAAACAACAATCCAGAAGGGCAG
AGAAGACATTGATAACCTAAAGAAGACCGAAGAAGAGTGTCTGAAAATTGTTGAAGAACTCATG
GTGAAACAAGAACAAGTTAAGGAAGTGCTTGCCACACAGAGTTCCAACATTGAGAAAATTCATA
TTCAAATTGAAGAGGAACGCAAGAAGTTTTTGGCTGTTGATAGGGAAGTTGGAAAATTACAGAA
GGAAGTTGTAATCATTCAGGGTTCTTTGGAACAGAAACAACTAGAGAAGCATAACTTGCTCCTG
GACTGCAAAGTTCAAGACATTGACATAAGTCTCATGCTGGGGTCATTGGAGGACATCATTGAAG
TGGAGCTAACTGAAACAGAAAGTACCCAGGCAACGGCTGATATCTATGAAAAAGAAGCATCCAT
CCAAATAGACTACAGCCCTCTAAGGGAGGATTGGAAGGCTCTACAATCAGATAAGGAGGTGGAG
GCCCACCTCACACTCCTTCTACAGCAAGTAGCATCCCAAGAAAATACTCTACTGAAGACTGCAG
CTCCAAACCTGCGAGCACAGGAGAACTTAAAGGCTGTCAGAGACAAATTTCAAGAATCTGCAGA
TGCTTTTGAGGCCAGCAGAAAGGAAGCCAGAATATGTAGGCAAGAGTTTGAACAGGTGAAAAGA
CGGAGGTACGATGCTTTCAGTCAGTGTTTTGAGCACATCTCGGTCTCAATTGATCAAATCTACA
AGAAGCTCTGCAGGAACAACAGTGCCCAGGCATTTCTTAGCCCAGAGAACCCTGAAGAACCTTA
CTTAGATGGAATTAGCTATAATTGTGTGGCTCCAGGCAAACGGTTCATGCCTATGGACAACTTG
TCAGGGGGAGAAAAGTGTGTGGCTGCTCTGGCTCTTCTGTTTGCTGTACACAGTTTTCGACCTG
CTCCATTCTTTGTATTAGATGAAGTAGATGCAGCCCTGGACAATACTAACATCGGCAAAGTCTC
AGGTTACATCAAAGAGCAGAGTCAGGAACAATTTCAGATGATAATCATTTCCCTGAAAGAGGAG
TTTTACTCCAGAGCTGATGCACTGATAGGCGTCTACCCAGAGCACGATGAATGCATGTTCAGCC
ATGTGTTGACTCTGGACCTTTCCAAGTATCCAGACACTGAAGACCAAGAAGGCAGCAGGAGCCA
CCGGAAACCCAGAGCACGAGTATCACAGTCCCCGCAGTCTCCCCAGTCTCGTTAGAAATGAAAC
AGCCACCAGCTGTAGAAGCTTTACCCTGAGCCTGTGGAGGTCAGGTCAGTCTCTGTTTATACCC
ATGTGTCATAGAAGAAAAATTTCTTACCATTTTGGTAGAACAAGTTATAGCCCACTCCAGCTAA
GGAGTGCTCAACCCCATTCCAATAGAGGTTTCTTATGACAACAATGAATGAGGTATATGGTTTT
CTTTTGCTTTTAAGGACTTCTGTTTTGAAATAAATTGGTTATAAAATTCTGCAACATC

hide sequence

RefSeq Acc Id:

XM_063263329 ⟹ XP_063119399

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	118,060,905 - 118,122,683 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001123970	(Get FASTA)	NCBI Sequence Viewer
	XP_063119399	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM15589	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000043834
	ENSRNOP00000043834.4
	ENSRNOP00000082988.2
	ENSRNOP00000099099
	ENSRNOP00000099099.1

RefSeq Acc Id:

NP_001123970 ⟸ NM_001130498

- UniProtKB:

D3ZE73 (UniProtKB/TrEMBL), A6HTD3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGHLELLLVENFKSWRGRQVIGPFKRFTCIIGPNGSGKSNVMDALSFVMGEKTTNLRVKNIQEL
IHGAHIGKPVSSSASVTIIYVEDSGEEKTFTRIIRGGCSEFHFGDKPVSRSVYVAQLENIGIIV
KAQNCLVFQGTVESISMKKPKERTQFFEEISTSGEFIGEYEAKKKKLQKAEEDAQFHFNRKKNV
AAERKHAKIEKEEAEHYQSLLEELKTNKIQLMLFQLYYNEEKINVLNTELEHMDRNLSVVKDTL
SHHENIIKAKKKDYGMLTRQLQQTAKELKSVEAVLNQKRPQYIKAKENTSHHLKKLDLSKKLIT
DNEKQCAKQEDGIRALVAELVDLDRAWRSFEKQMEEKILHKGRDIELENSQLDRYKELKEQVRR
RVGIMTQQLEKLQWEQKAEKERLAFERRRHGDTQGNLKQIKEQIEEHKKRIEKLEEYTKTCMDC
LEDKKQQEEALIKEIDNTKSRMSEVNEELSLIRNELQNAGIDNHEGKRQRKRAEVLEHLKRLYP
DSVFGRLLDLCHPIHKKYQLAVTKLFGRYMVAIVVASEKVAKDCIRFLKEERAEPETFLALDYL
DIKPINERLREIKGCKMMIDVIKTQFPQLKKVIQFVCGNGLVCETVEEARHIAFGGPERRKAVA
LDGTLFLKSGVISGGSSDLKHKALCWDEKELHSLRDKRNQLVQELKELMKTLRKETDLKQIQAL
VQGTNTRLKYSQNELEMIKKKHLATFYREQSQLQSELLNIDSQCTMLSEGINKQQQKIEEFQDK
IDKVEDDIFQDFCEEIGVENIREFENKHVKQQQENDQKRLEFEKQKTRLNIQLEYSRNQLKKKL
NKIDTLKTTIQKGREDIDNLKKTEEECLKIVEELMVKQEQVKEVLATQSSNIEKIHIQIEEERK
KFLAVDREVGKLQKEVVIIQGSLEQKQLEKHNLLLDCKVQDIDISLMLGSLEDIIEVELTETES
TQATADIYEKEASIQIDYSPLREDWKALQSDKEVEAHLTLLLQQVASQENTLLKTAAPNLRAQE
NLKAVRDKFQESADAFEASRKEARICRQEFEQVKRRRYDAFSQCFEHISVSIDQIYKKLCRNNS
AQAFLSPENPEEPYLDGISYNCVAPGKRFMPMDNLSGGEKCVAALALLFAVHSFRPAPFFVLDE
VDAALDNTNIGKVSGYIKEQSQEQFQMIIISLKEEFYSRADALIGVYPEHDECMFSHVLTLDLS
KYPDTEDQEGSRSHRKPRARVSQSPQSPQSR

hide sequence

Ensembl Acc Id:

ENSRNOP00000043834 ⟸ ENSRNOT00000044883

Ensembl Acc Id:

ENSRNOP00000082988 ⟸ ENSRNOT00000102718

RefSeq Acc Id:	XP_063119399 ⟸ XM_063263329
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I5ZV39 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000099099 ⟸ ENSRNOT00000127457

Protein Domains

SMC hinge

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZE73-F1-model_v2	AlphaFold	D3ZE73	1-1247	view protein structure

Transcriptome

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

Promoters

RGD ID:

13695563

Promoter ID:

EPDNEW_R6088

Type:

multiple initiation site

Name:

Smc1b_1

Description:

structural maintenance of chromosomes 1B

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	7	126,028,269 - 126,028,329	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308791	AgrOrtholog
BioCyc Gene	G2FUF-32562	BioCyc
Ensembl Genes	ENSRNOG00000032570	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000044883	ENTREZGENE
	ENSRNOT00000044883.6	UniProtKB/TrEMBL
	ENSRNOT00000102718.2	UniProtKB/TrEMBL
	ENSRNOT00000127457	ENTREZGENE
	ENSRNOT00000127457.1	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	rno:300121	UniProtKB/TrEMBL
NCBI Gene	300121	ENTREZGENE
PANTHER	STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN 1B	UniProtKB/TrEMBL
	STRUCTURAL MAINTENANCE OF CHROMOSOMES SMC FAMILY MEMBER	UniProtKB/TrEMBL
Pfam	SMC_hinge	UniProtKB/TrEMBL
	SMC_N	UniProtKB/TrEMBL
PhenoGen	Smc1b	PhenoGen
PIRSF	SMC	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000032570	RatGTEx
SMART	SMC_hinge	UniProtKB/TrEMBL
Superfamily-SCOP	SMC_hinge	UniProtKB/TrEMBL
	SSF52540	UniProtKB/TrEMBL
UniProt	A0A8I5ZV39	ENTREZGENE, UniProtKB/TrEMBL
	A0ABK0L8I0_RAT	UniProtKB/TrEMBL
	A6HTD3	ENTREZGENE, UniProtKB/TrEMBL
	D3ZE73	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-10-23	Smc1b	structural maintenance of chromosomes 1B	Smc1b	structural maintenace of chromosomes 1B	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-07	Smc1b	structural maintenace of chromosomes 1B	Smc1l2_predicted	SMC (structural maintenace of chromosomes 1)-like 2 (S. cerevisiae) (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-12	Smc1l2_predicted	SMC (structural maintenace of chromosomes 1)-like 2 (S. cerevisiae) (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - KEGG (archival)