Ldb1 (LIM domain binding 1) - Rat Genome Database

Name: Ldb1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Ldb1 (LIM domain binding 1) Rattus norvegicus

Analyze

Symbol:

Ldb1

Name:

LIM domain binding 1

RGD ID:

1310359

Description:

Predicted to enable several functions, including LIM domain binding activity; protein homodimerization activity; and protein self-association. Predicted to contribute to DNA binding activity. Predicted to be involved in several processes, including histone H3-K4 acetylation; negative regulation of erythrocyte differentiation; and regulation of macromolecule biosynthetic process. Predicted to act upstream of or within several processes, including cerebellar Purkinje cell differentiation; epithelial structure maintenance; and hair follicle development. Located in nucleus. Orthologous to human LDB1 (LIM domain binding 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bis(2-ethylhexyl) phthalate; bisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LIM domain-binding protein 1; LOC309447

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

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):	LDB1 (LIM domain binding 1)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Ldb1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ldb1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LDB1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LDB1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ldb1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LDB1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LDB1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ldb1 (LIM domain binding 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	LDB1 (LIM domain binding 1)	Alliance	DIOPT (HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ldb1 (LIM domain binding 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ldb1a (LIM domain binding 1a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Chi	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	244,864,168 - 244,890,007 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	244,877,173 - 244,890,013 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	253,021,407 - 253,028,952 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	1	259,716,387 - 259,723,937 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	1	252,368,592 - 252,376,144 (-)	NCBI	Rnor_WKY
Rnor_6.0	1	265,772,729 - 265,798,442 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	265,785,409 - 265,798,167 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	273,215,566 - 273,228,637 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	251,253,305 - 251,260,850 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	251,513,919 - 251,527,836 (-)	NCBI
Celera	1	240,683,703 - 240,691,248 (-)	NCBI		Celera
Cytogenetic Map	1	q54	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

nail-patella syndrome (ISS)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

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

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

aflatoxin B1 (ISO)

aristolochic acid A (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bis(2-ethylhexyl) phthalate (EXP)

bisphenol A (EXP)

cadmium atom (ISO)

cadmium dichloride (ISO)

calcium silicate (ISO)

carbon nanotube (ISO)

chlormequat chloride (EXP)

chlorpyrifos (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

dexamethasone (ISO)

dibutyl phthalate (EXP)

doxorubicin (ISO)

ethyl methanesulfonate (ISO)

fenthion (ISO)

formaldehyde (ISO)

gentamycin (EXP)

hydrogen cyanide (ISO)

indometacin (ISO)

lead diacetate (ISO)

methamphetamine (ISO)

methyl methanesulfonate (ISO)

ozone (ISO)

potassium cyanide (ISO)

sulindac (ISO)

tamoxifen (ISO)

titanium dioxide (ISO)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

anterior/posterior axis specification (ISO)

cell adhesion (ISO)

cellular component assembly (ISO)

cerebellar Purkinje cell differentiation (ISO)

cerebellum development (ISO)

epithelial structure maintenance (ISO)

gastrulation with mouth forming second (ISO)

hair follicle development (ISO)

head development (ISO)

histone H3-K4 acetylation (ISO)

negative regulation of DNA-templated transcription (ISO)

negative regulation of erythrocyte differentiation (ISO)

negative regulation of transcription by RNA polymerase II (IBA,ISO)

nervous system development (IBA)

neuron differentiation (ISO)

positive regulation of cell adhesion (ISO)

positive regulation of hemoglobin biosynthetic process (ISO)

positive regulation of transcription by RNA polymerase II (IBA,ISO)

regulation of cell migration (ISO)

regulation of focal adhesion assembly (ISO)

regulation of kinase activity (ISO)

regulation of transcription elongation by RNA polymerase II (ISO)

somatic stem cell population maintenance (ISO)

transcription by RNA polymerase II (ISO)

transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery (ISO)

Wnt signaling pathway (ISO)

Cellular Component

beta-catenin-TCF complex (ISO)

cell leading edge (ISO)

chromatin (ISO)

nucleus (IBA)

nucleus (IDA)

nucleus (ISO)

protein-containing complex (ISO)

RNA polymerase II transcription regulator complex (ISO)

transcription regulator complex (IBA,ISO)

Molecular Function

chromatin binding (ISO)

DNA binding (ISO)

DNA-binding transcription factor binding (ISO)

enzyme binding (ISO)

identical protein binding (ISO)

LIM domain binding (IBA,ISO)

protein binding (IPI,ISO)

protein homodimerization activity (ISO)

protein self-association (ISO)

RNA polymerase II-specific DNA-binding transcription factor binding (ISO)

transcription coactivator activity (ISO)

transcription coregulator activity (ISO)

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.	Functional analysis of the nuclear LIM domain interactor NLI.	Jurata LW and Gill GN, Mol Cell Biol. 1997 Oct;17(10):5688-98.
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:8876198	PMID:8918878	PMID:9192866	PMID:9391090	PMID:9468533	PMID:10767331	PMID:11882901	PMID:12477932	PMID:12490556	PMID:12792813	PMID:15857913	PMID:16314316
PMID:17005264	PMID:17664423	PMID:17991461	PMID:18184866	PMID:18550854	PMID:19011221	PMID:19323994	PMID:19675209	PMID:20570862	PMID:20855495	PMID:23382074	PMID:26494787
PMID:28296634

Genomics

Comparative Map Data

Ldb1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	244,864,168 - 244,890,007 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	244,877,173 - 244,890,013 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	253,021,407 - 253,028,952 (-)	NCBI	Rnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0	1	259,716,387 - 259,723,937 (-)	NCBI	Rnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0	1	252,368,592 - 252,376,144 (-)	NCBI	Rnor_WKY
Rnor_6.0	1	265,772,729 - 265,798,442 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	265,785,409 - 265,798,167 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	273,215,566 - 273,228,637 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	251,253,305 - 251,260,850 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	251,513,919 - 251,527,836 (-)	NCBI
Celera	1	240,683,703 - 240,691,248 (-)	NCBI		Celera
Cytogenetic Map	1	q54	NCBI

LDB1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	10	102,102,088 - 102,121,442 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p13 Ensembl	10	102,106,489 - 102,120,368 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	10	103,866,246 - 103,880,125 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	10	103,857,307 - 103,864,692 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	10	103,857,316 - 103,864,692	NCBI
Celera	10	97,608,243 - 97,621,137 (-)	NCBI		Celera
Cytogenetic Map	10	q24.32	NCBI
HuRef	10	97,499,399 - 97,512,291 (-)	NCBI		HuRef
CHM1_1	10	104,150,870 - 104,163,764 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	10	102,991,499 - 103,005,382 (-)	NCBI		T2T-CHM13v2.0

Ldb1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	46,019,963 - 46,036,584 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	46,020,009 - 46,033,653 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	46,031,525 - 46,048,145 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	46,031,570 - 46,045,214 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	46,107,084 - 46,119,701 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	46,085,905 - 46,092,932 (-)	NCBI		MGSCv36	mm8
Celera	19	46,795,488 - 46,808,103 (-)	NCBI		Celera
Cytogenetic Map	19	C3	NCBI
cM Map	19	38.75	NCBI

Ldb1
(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_004955485	8,229,517 - 8,241,142 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955485	8,229,517 - 8,242,003 (+)	NCBI	ChiLan1.0	ChiLan1.0

LDB1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	10	102,176,744 - 102,191,745 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	10	102,179,757 - 102,184,047 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	10	98,707,470 - 98,722,771 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

LDB1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	28	14,646,409 - 14,658,324 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	28	14,646,056 - 14,658,548 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	28	14,818,513 - 14,830,424 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	28	15,119,475 - 15,131,392 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	28	15,118,375 - 15,131,637 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	28	14,664,778 - 14,676,690 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	28	14,704,089 - 14,716,005 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	28	14,836,486 - 14,848,625 (-)	NCBI		UU_Cfam_GSD_1.0

Ldb1
(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_024407213	32,111,411 - 32,125,588 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936600	3,714,095 - 3,728,815 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936600	3,714,630 - 3,728,813 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LDB1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	14	113,113,179 - 113,126,816 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	113,114,302 - 113,126,455 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	122,967,114 - 122,979,261 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LDB1
(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	9	95,102,312 - 95,153,029 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	9	95,138,424 - 95,153,179 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666048	56,236,189 - 56,248,919 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ldb1
(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_004624831	1,571,942 - 1,584,775 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624831	1,573,058 - 1,584,861 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ldb1
86 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	56
Count of miRNA genes:	53
Interacting mature miRNAs:	55
Transcripts:	ENSRNOT00000040904
Prediction methods:	Miranda, Rnahybrid
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2302378	Insul11	Insulin level QTL 11	3.25		blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	144267353	251128347	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	150700142	252085212	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	150700247	252085048	Rat
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	150700247	252085048	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	151162512	256448636	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	151162512	256448636	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	153136852	260522016	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	156677124	256448636	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	176426412	257976495	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	177227632	256448636	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	177227632	256448636	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	179567751	260522016	Rat
1358898	Bp255	Blood pressure QTL 255	3.6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	191019702	246062233	Rat
1600388	Niddm67	Non-insulin dependent diabetes mellitus QTL 67	5.84	0.000004	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
1600395	Niddm69	Non-insulin dependent diabetes mellitus QTL 69	4.14	0.0002	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	195804352	257091168	Rat
1600396	Niddm68	Non-insulin dependent diabetes mellitus QTL 68	4.97	0.0003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	195804352	257091168	Rat
634313	Niddm43	Non-insulin dependent diabetes mellitus QTL 43			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	199050459	259647894	Rat
2293694	Bss38	Bone structure and strength QTL 38	7.05	0.0001	femur strength trait (VT:0010010)	femur stiffness (CMO:0001674)	1	201554356	246554356	Rat
7394701	Uae46	Urinary albumin excretion QTL 46	3.6	0.0056	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	201554356	246554356	Rat
2300175	Bmd40	Bone mineral density QTL 40	15.4	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	1	201554356	246554356	Rat
2293655	Bss36	Bone structure and strength QTL 36	10.66	0.0001	femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	201554356	246554356	Rat
2293674	Bss39	Bone structure and strength QTL 39	7.1	0.0001	femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	1	201554356	246554356	Rat
10059587	Bw173	Body weight QTL 173	3.23	0.025	body mass (VT:0001259)	body weight (CMO:0000012)	1	202069611	247069611	Rat
1600397	Edcs4	Endometrial carcinoma susceptibility QTL 4	2.2		uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	1	206081677	251081677	Rat
1357399	Bw45	Body weight QTL 45	3.05		body mass (VT:0001259)	body mass index (BMI) (CMO:0000105)	1	206329708	251329708	Rat
1357404	Bw42	Body weight QTL 42	4.49	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	206329708	251329708	Rat
1358890	Bp259	Blood pressure QTL 259	3.06		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	210702053	260522016	Rat
724538	Kidm1	Kidney mass QTL 1	3.2		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	213707201	252085212	Rat
734768	Niddm59	Non-insulin dependent diabetes mellitus QTL 59			body mass (VT:0001259)	body weight (CMO:0000012)	1	213843987	258843987	Rat
70211	Niddm24	Non-insulin dependent diabetes mellitus QTL 24	3.79		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	214647894	259647894	Rat
1549910	Bw54	Body weight QTL 54		0.05	body mass (VT:0001259)	body weight (CMO:0000012)	1	214647894	259647894	Rat
61327	Eae7	Experimental allergic encephalomyelitis QTL 7	5.6		body mass (VT:0001259)	change in body weight (CMO:0002045)	1	216255568	260522016	Rat
2302040	Pia35	Pristane induced arthritis QTL 35	3.8	0.001	blood immunoglobulin amount (VT:0002460)	serum immunoglobulin G1 level (CMO:0002115)	1	216255568	260522016	Rat
1598821	Rf55	Renal function QTL 55	6.3		renal blood flow trait (VT:2000006)	ratio of change in renal blood flow to change in renal perfusion pressure (CMO:0001239)	1	218748008	257976495	Rat
61400	Niddm1	Non-insulin dependent diabetes mellitus QTL 1	11		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	218753689	245907899	Rat
724533	Rf51	Renal function QTL 51	5.3	0.0002	kidney plasma flow trait (VT:0005524)	renal plasma flow (CMO:0001914)	1	218753816	256448513	Rat
731175	Uae20	Urinary albumin excretion QTL 20	3.5	0.0018	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	221264111	259647894	Rat
10053715	Scort24	Serum corticosterone level QTL 24	2.13	0.0088	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	1	221414816	260522016	Rat
724552	Glom2	Glomerulus QTL 2	3.3	0.0001	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)	1	222363780	260522016	Rat
1600392	Bw123	Body weight QTL 123		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	1	223201027	260522016	Rat
734767	Niddm57	Non-insulin dependent diabetes mellitus QTL 57			body mass (VT:0001259)	body weight (CMO:0000012)	1	224054293	260122809	Rat
631843	Bw116	Body weight QTL 116	4.1	0.016	abdominal adipose amount (VT:1000220)	abdominal fat pad weight (CMO:0000088)	1	224054293	260122809	Rat
734769	Niddm58	Non-insulin dependent diabetes mellitus QTL 58			body mass (VT:0001259)	body weight (CMO:0000012)	1	224569538	260122809	Rat
631215	Stl8	Serum triglyceride level QTL 8	9.27	0.0001	blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	1	225126575	260522016	Rat
1300108	Rf8	Renal function QTL 8	3.75		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	1	228581588	259647894	Rat
2316896	Gluco57	Glucose level QTL 57	7.2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	228985440	245907899	Rat
1581544	Rf52	Renal function QTL 52		0.05	urine total protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	1	232156370	259647894	Rat
631669	Iddm9	Insulin dependent diabetes mellitus QTL 9	2.8	0.039	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	1	233190394	258625266	Rat
631536	Lnnr2	Liver neoplastic nodule remodeling QTL 2	2.9	0.0005	liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)	1	233948574	260522016	Rat
631690	Scl5	Serum cholesterol level QTL 5	2.1		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	1	236125214	260522016	Rat
631836	Stl31	Serum triglyceride level QTL 31	4.64	0.00000487	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	1	237147813	260522016	Rat
631837	Niddm35	Non-insulin dependent diabetes mellitus QTL 35		0.01	blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	238699859	259647894	Rat

Markers in Region

RH134335

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	244,877,400 - 244,877,600 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	265,785,637 - 265,785,836	NCBI	Rnor6.0
Rnor_5.0	1	273,215,832 - 273,216,031	UniSTS	Rnor5.0
RGSC_v3.4	1	251,253,555 - 251,253,754	UniSTS	RGSC3.4
Celera	1	240,683,953 - 240,684,152	UniSTS
RH 3.4 Map	1	1622.3	UniSTS
Cytogenetic Map	1	q54	UniSTS

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	40	56	40	19	40	2	5	74	35	38	11	2
Low		3	1	1		1	6	6			3		6
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107601	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231493	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231494	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017589289	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_017589290	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC093941	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC119478	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC166757	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473986	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000054	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000040904 ⟹ ENSRNOP00000042807

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	244,877,173 - 244,884,696 (-)	Ensembl
Rnor_6.0 Ensembl	1	265,785,409 - 265,792,932 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000079483 ⟹ ENSRNOP00000069575

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	244,877,173 - 244,890,013 (-)	Ensembl
Rnor_6.0 Ensembl	1	265,785,425 - 265,798,167 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000102680 ⟹ ENSRNOP00000080017

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	244,877,173 - 244,881,351 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000120124 ⟹ ENSRNOP00000083694

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	1	244,877,524 - 244,884,696 (-)	Ensembl

RefSeq Acc Id:

NM_001107601 ⟹ NP_001101071

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	244,877,151 - 244,884,696 (-)	NCBI
Rnor_6.0	1	265,785,387 - 265,792,932 (-)	NCBI
Rnor_5.0	1	273,215,566 - 273,228,637 (-)	NCBI
RGSC_v3.4	1	251,253,305 - 251,260,850 (-)	RGD
Celera	1	240,683,703 - 240,691,248 (-)	RGD

Sequence:

show sequence

GGGAGGAGAGGGAGGGAGGAGGGAGAGAAAGGGAGAAAGGAAGGAGCAGGCGGGCGCTGCGTGT
GTCTGAGTGTGCCAGTGTGAGTGAGTGTGAGTGCCGGGCCCTGCCTCTCCCGCCTCCCCTGCAG
AGGGGCCCGGTGGCCTAGGGAGGGCGGGCGGGCTGCTTGGAGGCAGAGGCAGCGAGAGGCGGCG
GCGGGCAGAGCCGAGGAGGAGGAGGAGAGAGGAAAGAGCCGAGCAGCCATTGTTGAGGGAAACC
TTGCAAACAAAGAAGGCTCCGGACTCCCCGCGGCCCCCCGCCCCCCAGGCCGGCCCCCTGGCCC
CCAGCCCCCGGCCCAGTGGCCATTGTAACTTTCCCCCCGGGCTGTGGACCCCGCGGGGCGGGCG
GAGGCTGTGCATGCGAGTCTTTGTGCGGCCTGCGGAGTGGAGCTCCCAGCCAGACCGGCCTGTC
CCACTCGGGACATGAGCTGCTGAAGTTGGCTCCACCTTAGTCCTCACCCTTGCCAGGGTCCCTG
AGGACTTCCAGGCGCTCCCCGCACCTCCCCTGACCCCCTCAGTTCTCCCAGGTTGTTCCTCAAA
GTCATTCAAGCTGTACTCCCCGAAGGAGCCCCCGAACGGCAACGCCTTCCCTCCCTTCCATCCC
GGCACCATGCTGGATCGGGATGTGGGCCCAACTCCCATGTACCCACCTACATACCTGGAGCCTG
GGATAGGGAGGCACACGCCATATGGTAACCAGACAGACTATAGAATATTTGAACTTAACAAACG
ACTACAGAACTGGACAGAGGAGTGTGACAATCTCTGGTGGGACGCTTTCACGACCGAGTTCTTC
GAGGATGATGCTATGCTGACCATCACTTTCTGCCTGGAGGATGGACCAAAGAGATATACCATTG
GCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTCGAGGGGGGTGCTACGGAGCTGTATTA
CGTACTTAAGCACCCCAAGGAGGCATTCCACAGCAACTTCGTGTCCCTCGACTGTGACCAGGGC
AGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGGTGTGTGTGGAAGGCCGGTTGTACC
TGGAGTTCATGTTTGACGACATGATGCGGATAAAGACATGGCACTTCAGTATCCGGCAGCACAG
AGAGCTCATCCCCAGGAGTATCCTGGCCATGCACGCCCAGGACCCCCAGATGTTGGATCAGCTC
TCCAAAAACATTACCCGGTGTGGGTTGTCCAATTCCACTCTCAACTACCTCCGACTCTGTGTGA
TACTGGAGCCCATGCAGGAACTCATGTCCCGTCACAAGACCTACAGCCTCAGCCCCCGAGACTG
CCTCAAGACCTGCCTTTTCCAGAAGTGGCAGCGGATGGTAGCACCTCCCGCGGAGCCTGCACGA
CAGCAGCCCAGCAAACGGAGGAAACGGAAGATGTCAGGGGGTAGCACCATGAGCTCGGGGGGCG
GCAACACCAACAACAGCAACAGCAAGAAGAAGAGCCCAGCCAGCACCTTCGCTCTCTCCAGCCA
GGTACCTGATGTGATGGTGGTGGGGGAGCCCACCCTGATGGGCGGGGAGTTCGGGGACGAGGAC
GAGAGGCTCATCACTCGGCTGGAGAACACCCAGTTTGACGCGGCCAACGGCATTGACGACGAGG
ACAGCTTTAACAACTCCCCTGCACTGGGCGCCAACAGCCCCTGGAACAGCAAGCCTCCGTCCAG
CCAAGAAAGCAAATCGGAGAACCCCACGTCACAGGCTTCCCAGTAAAGGCCCTACCACGGCCAC
CCAGGTCTCTGCCTGCTACCCCTCACAGCTCCAGGGAGCAGAAGCCAGAACGAAGAGACTGGGC
GTCTGAAATGGGCAACCTCCATCTACCCACTTCAGGGAGGGACTGGACTCGCTGGGGGCAGGTG
CCAAGATTTGCCCCCGAGTTGCCCTGGGCTGGGCCTGGCCCCTGCAGAGCCTTTTGGGGGAAGG
GGGTACTCATGTGGATGCCTATATGGACCCTGGGCTTCTGAGAAATGTCCTGACCCTCCTCTCC
CCAGGGCATTTGTCCCCATTCGTACCCCAGGTTCTGGGTACCCCATCTTCCTGATTTATCCCTT
TGAGCCTGGGGTTTATACCCACAGCCCTTAGGGGCTAAATGTTGGGGCCTTGGTTGAATGCCCT
TTCCCCTAGGCGGCTGTCAACAGAGGGTAAAATTCTGGGCTCCTCCCTTTTGCCACTTACCCAG
CTCCAAGTTTTTAAAAAAAAATAATATTATTAAAAATGTAAATTAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006231493 ⟹ XP_006231555

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	244,877,151 - 244,889,945 (-)	NCBI
Rnor_6.0	1	265,785,371 - 265,798,442 (-)	NCBI
Rnor_5.0	1	273,215,566 - 273,228,637 (-)	NCBI

Sequence:

show sequence

GCCGGCGCCTGCGAGAGGGAGAGGACGCGCGAACGGGAGCGAGCGCGAGGGCGGCGGCGGGGAG
GGCGGCGGGAGCGCACAGACACGCACACGCACACGCGCACACACGGACACACACTCCGGGGACG
CACACCCGCGCGTACACACGCAGAGGCAGCTCGCCTTCCTGCCTGGCTTCCTTCCTGTTTGCTC
CGCGCCTGACAGGCCCCTCGCTGCAGGCAGGGGCGGCCCGCACCGGGCAAAGGCCGGGCCGGGC
CGGCGGCGCGGGCAACGGGGGCCGCGGGCGGCGGCAGCGGCTCATGCCCAGCCTGTCCCTGCGA
GGGGCGGGCATCGTGACTCGGCTGGGCCCCCAGCAGCGGGCGATGTGAAGATGTCAGTGGGCTG
TGCCTGTCCTGGTTGTTCCTCAAAGTCATTCAAGCTGTACTCCCCGAAGGAGCCCCCGAACGGC
AACGCCTTCCCTCCCTTCCATCCCGGCACCATGCTGGATCGGGATGTGGGCCCAACTCCCATGT
ACCCACCTACATACCTGGAGCCTGGGATAGGGAGGCACACGCCATATGGTAACCAGACAGACTA
TAGAATATTTGAACTTAACAAACGACTACAGAACTGGACAGAGGAGTGTGACAATCTCTGGTGG
GACGCTTTCACGACCGAGTTCTTCGAGGATGATGCTATGCTGACCATCACTTTCTGCCTGGAGG
ATGGACCAAAGAGATATACCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTCGA
GGGGGGTGCTACGGAGCTGTATTACGTACTTAAGCACCCCAAGGAGGCATTCCACAGCAACTTC
GTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGG
TGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACATG
GCACTTCAGTATCCGGCAGCACAGAGAGCTCATCCCCAGGAGTATCCTGGCCATGCACGCCCAG
GACCCCCAGATGTTGGATCAGCTCTCCAAAAACATTACCCGGTGTGGGTTGTCCAATTCCACTC
TCAACTACCTCCGACTCTGTGTGATACTGGAGCCCATGCAGGAACTCATGTCCCGTCACAAGAC
CTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTTTTCCAGAAGTGGCAGCGGATGGTA
GCACCTCCCGCGGAGCCTGCACGACAGCAGCCCAGCAAACGGAGGAAACGGAAGATGTCAGGGG
GTAGCACCATGAGCTCGGGGGGCGGCAACACCAACAACAGCAACAGCAAGAAGAAGAGCCCAGC
CAGCACCTTCGCTCTCTCCAGCCAGGTACCTGATGTGATGGTGGTGGGGGAGCCCACCCTGATG
GGCGGGGAGTTCGGGGACGAGGACGAGAGGCTCATCACTCGGCTGGAGAACACCCAGTTTGACG
CGGCCAACGGCATTGACGACGAGGACAGCTTTAACAACTCCCCTGCACTGGGCGCCAACAGCCC
CTGGAACAGCAAGCCTCCGTCCAGCCAAGAAAGCAAATCGGAGAACCCCACGTCACAGGCTTCC
CAGTAAAGGCCCTACCACGGCCACCCAGGTCTCTGCCTGCTACCCCTCACAGCTCCAGGGAGCA
GAAGCCAGAACGAAGAGACTGGGCGTCTGAAATGGGCAACCTCCATCTACCCACTTCAGGGAGG
GACTGGACTCGCTGGGGGCAGGTGCCAAGATTTGCCCCCGAGTTGCCCTGGGCTGGGCCTGGCC
CCTGCAGAGCCTTTTGGGGGAAGGGGGTACTCATGTGGATGCCTATATGGACCCTGGGCTTCTG
AGAAATGTCCTGACCCTCCTCTCCCCAGGGCATTTGTCCCCATTCGTACCCCAGGTTCTGGGTA
CCCCATCTTCCTGATTTATCCCTTTGAGCCTGGGGTTTATACCCACAGCCCTTAGGGGCTAAAT
GTTGGGGCCTTGGTTGAATGCCCTTTCCCCTAGGCGGCTGTCAACAGAGGGTAAAATTCTGGGC
TCCTCCCTTTTGCCACTTACCCAGCTCCAAGTTTTTAAAAAAAAATAATATTATTAAAAATGTA
AATTAAAAAAAAATCACTCATGTTCCCTA

hide sequence

RefSeq Acc Id:

XM_006231494 ⟹ XP_006231556

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	244,877,151 - 244,890,007 (-)	NCBI
Rnor_6.0	1	265,785,371 - 265,798,442 (-)	NCBI
Rnor_5.0	1	273,215,566 - 273,228,637 (-)	NCBI

Sequence:

show sequence

GCCGGCGCCTGCGAGAGGGAGAGGACGCGCGAACGGGAGCGAGCGCGAGGGCGGCGGCGGGGAG
GGCGGCGGGAGCGCACAGACACGCACACGCACACGCGCACACACGGACACACACTCCGGGGACG
CACACCCGCGCGTACACACGCAGAGGCAGCTCGCCTTCCTGCCTGGCTTCCTTCCTGTTTGCTC
CGCGCCTGACAGGCCCCTCGCTGCAGGCAGGGGCGGCCCGCACCGGGCAAAGGCCGGGCCGGGC
CGGCGGCGCGGGCAACGGGGGCCGCGGGCGGCGGCAGCGGCTCATGCCCAGCCTGTCCCTGCGA
GGGGCGGGCATCGTGACTCGGCTGGGCCCCCAGCAGCGGGCGATGTGAAGATGTCAGTGGGCTG
TGCCTGTCCTGGTTGTTCCTCAAAGTCATTCAAGCTGTACTCCCCGAAGGAGCCCCCGAACGGC
AACGCCTTCCCTCCCTTCCATCCCGGCACCATGCTGGATCGGGATGTGGGCCCAACTCCCATGT
ACCCACCTACATACCTGGAGCCTGGGATAGGGAGGCACACGCCATATGGTAACCAGACAGACTA
TAGAATATTTGAACTTAACAAACGACTACAGAACTGGACAGAGGAGTGTGACAATCTCTGGTGG
GACGCTTTCACGACCGAGTTCTTCGAGGATGATGCTATGCTGACCATCACTTTCTGCCTGGAGG
ATGGACCAAAGAGATATACCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTCGA
GGGGGGTGCTACGGAGCTGTATTACGTACTTAAGCACCCCAAGGAGGCATTCCACAGCAACTTC
GTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGG
TGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACATG
GCACTTCAGTATCCGGCAGCACAGAGAGCTCATCCCCAGGAGTATCCTGGCCATGCACGCCCAG
GACCCCCAGATGTTGGATCAGCTCTCCAAAAACATTACCCGGTGTGGGTTGTCCAATTCCACTC
TCAACTACCTCCGACTCTGTGTGATACTGGAGCCCATGCAGGAACTCATGTCCCGTCACAAGAC
CTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTTTTCCAGAAGTGGCAGCGGATGGTA
GCACCTCCCGCGGAGCCTGCACGACAGCAGCCCAGCAAACGGAGGAAACGGAAGATGTCAGGGG
GTAGCACCATGAGCTCGGGGGGCGGCAACACCAACAACAGCAACAGCAAGAAGAAGAGCCCAGC
CAGCACCTTCGCTCTCTCCAGCCAGGATGTGATGGTGGTGGGGGAGCCCACCCTGATGGGCGGG
GAGTTCGGGGACGAGGACGAGAGGCTCATCACTCGGCTGGAGAACACCCAGTTTGACGCGGCCA
ACGGCATTGACGACGAGGACAGCTTTAACAACTCCCCTGCACTGGGCGCCAACAGCCCCTGGAA
CAGCAAGCCTCCGTCCAGCCAAGAAAGCAAATCGGAGAACCCCACGTCACAGGCTTCCCAGTAA
AGGCCCTACCACGGCCACCCAGGTCTCTGCCTGCTACCCCTCACAGCTCCAGGGAGCAGAAGCC
AGAACGAAGAGACTGGGCGTCTGAAATGGGCAACCTCCATCTACCCACTTCAGGGAGGGACTGG
ACTCGCTGGGGGCAGGTGCCAAGATTTGCCCCCGAGTTGCCCTGGGCTGGGCCTGGCCCCTGCA
GAGCCTTTTGGGGGAAGGGGGTACTCATGTGGATGCCTATATGGACCCTGGGCTTCTGAGAAAT
GTCCTGACCCTCCTCTCCCCAGGGCATTTGTCCCCATTCGTACCCCAGGTTCTGGGTACCCCAT
CTTCCTGATTTATCCCTTTGAGCCTGGGGTTTATACCCACAGCCCTTAGGGGCTAAATGTTGGG
GCCTTGGTTGAATGCCCTTTCCCCTAGGCGGCTGTCAACAGAGGGTAAAATTCTGGGCTCCTCC
CTTTTGCCACTTACCCAGCTCCAAGTTTTTAAAAAAAAATAATATTATTAAAAATGTAAATTAA
AAAAAAATCACTCATGTTCCCTA

hide sequence

RefSeq Acc Id:

XM_017589289 ⟹ XP_017444778

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	244,864,168 - 244,889,945 (-)	NCBI
Rnor_6.0	1	265,772,729 - 265,798,442 (-)	NCBI

Sequence:

show sequence

GCCGGCGCCTGCGAGAGGGAGAGGACGCGCGAACGGGAGCGAGCGCGAGGGCGGCGGCGGGGAG
GGCGGCGGGAGCGCACAGACACGCACACGCACACGCGCACACACGGACACACACTCCGGGGACG
CACACCCGCGCGTACACACGCAGAGGCAGCTCGCCTTCCTGCCTGGCTTCCTTCCTGTTTGCTC
CGCGCCTGACAGGCCCCTCGCTGCAGGCAGGGGCGGCCCGCACCGGGCAAAGGCCGGGCCGGGC
CGGCGGCGCGGGCAACGGGGGCCGCGGGCGGCGGCAGCGGCTCATGCCCAGCCTGTCCCTGCGA
GGGGCGGGCATCGTGACTCGGCTGGGCCCCCAGCAGCGGGCGATGTGAAGATGTCAGTGGGCTG
TGCCTGTCCTGGTTGTTCCTCAAAGTCATTCAAGCTGTACTCCCCGAAGGAGCCCCCGAACGGC
AACGCCTTCCCTCCCTTCCATCCCGGCACCATGCTGGATCGGGATGTGGGCCCAACTCCCATGT
ACCCACCTACATACCTGGAGCCTGGGATAGGGAGGCACACGCCATATGGTAACCAGACAGACTA
TAGAATATTTGAACTTAACAAACGACTACAGAACTGGACAGAGGAGTGTGACAATCTCTGGTGG
GACGCTTTCACGACCGAGTTCTTCGAGGATGATGCTATGCTGACCATCACTTTCTGCCTGGAGG
ATGGACCAAAGAGATATACCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTCGA
GGGGGGTGCTACGGAGCTGTATTACGTACTTAAGCACCCCAAGGAGGCATTCCACAGCAACTTC
GTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGG
TGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACATG
GCACTTCAGTATCCGGCAGCACAGAGAGCTCATCCCCAGGAGTATCCTGGCCATGCACGCCCAG
GACCCCCAGATGTTGGATCAGCTCTCCAAAAACATTACCCGGTGTGGGTTGTCCAATTCCACTC
TCAACTACCTCCGACTCTGTGTGATACTGGAGCCCATGCAGGAACTCATGTCCCGTCACAAGAC
CTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTTTTCCAGAAGTGGCAGCGGATGGTA
GCACCTCCCGCGGAGCCTGCACGACAGCAGCCCAGCAAACGGAGGAAACGGAAGATGTCAGGGG
GTAGCACCATGAGCTCGGGGGGCGGCAACACCAACAACAGCAACAGCAAGAAGAAGAGCCCAGC
CAGCACCTTCGCTCTCTCCAGCCAGGTACCTAAATCCCAGCTCGTGAACATTTGAAGAGTGAAG
CTGGCA

hide sequence

RefSeq Acc Id:

XM_017589290 ⟹ XP_017444779

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	244,864,168 - 244,889,945 (-)	NCBI
Rnor_6.0	1	265,772,729 - 265,798,442 (-)	NCBI

Sequence:

show sequence

GCCGGCGCCTGCGAGAGGGAGAGGACGCGCGAACGGGAGCGAGCGCGAGGGCGGCGGCGGGGAG
GGCGGCGGGAGCGCACAGACACGCACACGCACACGCGCACACACGGACACACACTCCGGGGACG
CACACCCGCGCGTACACACGCAGAGGCAGCTCGCCTTCCTGCCTGGCTTCCTTCCTGTTTGCTC
CGCGCCTGACAGGCCCCTCGCTGCAGGCAGGGGCGGCCCGCACCGGGCAAAGGCCGGGCCGGGC
CGGCGGCGCGGGCAACGGGGGCCGCGGGCGGCGGCAGCGGCTCATGCCCAGCCTGTCCCTGCGA
GGGGCGGGCATCGTGACTCGGCTGGGCCCCCAGCAGCGGGCGATGTGAAGATGTCAGTGGGCTG
TGCCTGTCCTGGTTGTTCCTCAAAGTCATTCAAGCTGTACTCCCCGAAGGAGCCCCCGAACGGC
AACGCCTTCCCTCCCTTCCATCCCGGCACCATGCTGGATCGGGATGTGGGCCCAACTCCCATGT
ACCCACCTACATACCTGGAGCCTGGGATAGGGAGGCACACGCCATATGGTAACCAGACAGACTA
TAGAATATTTGAACTTAACAAACGACTACAGAACTGGACAGAGGAGTGTGACAATCTCTGGTGG
GACGCTTTCACGACCGAGTTCTTCGAGGATGATGCTATGCTGACCATCACTTTCTGCCTGGAGG
ATGGACCAAAGAGATATACCATTGGCCGGACCCTGATACCACGCTACTTCCGAAGCATTTTCGA
GGGGGGTGCTACGGAGCTGTATTACGTACTTAAGCACCCCAAGGAGGCATTCCACAGCAACTTC
GTGTCCCTCGACTGTGACCAGGGCAGCATGGTGACCCAGCATGGCAAACCCATGTTTACCCAGG
TGTGTGTGGAAGGCCGGTTGTACCTGGAGTTCATGTTTGACGACATGATGCGGATAAAGACATG
GCACTTCAGTATCCGGCAGCACAGAGAGCTCATCCCCAGGAGTATCCTGGCCATGCACGCCCAG
GACCCCCAGATGTTGGATCAGCTCTCCAAAAACATTACCCGGTGTGGGTTGTCCAATTCCACTC
TCAACTACCTCCGACTCTGTGTGATACTGGAGCCCATGCAGGAACTCATGTCCCGTCACAAGAC
CTACAGCCTCAGCCCCCGAGACTGCCTCAAGACCTGCCTTTTCCAGAAGTGGCAGCGGATGGTA
GCACCTCCCGCGGAGCCTGCACGACAGCAGCCCAGCAAACGGAGGAAACGGAAGATGTCAGGGG
GTAGCACCATGAGCTCGGGGGGCGGCAACACCAACAACAGCAACAGCAAGAAGAAGAGCCCAGC
CAGCACCTTCGCTCTCTCCAGCCAGAAATCCCAGCTCGTGAACATTTGAAGAGTGAAGCTGGCA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101071	(Get FASTA)	NCBI Sequence Viewer
	XP_006231555	(Get FASTA)	NCBI Sequence Viewer
	XP_006231556	(Get FASTA)	NCBI Sequence Viewer
	XP_017444778	(Get FASTA)	NCBI Sequence Viewer
	XP_017444779	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI66757	(Get FASTA)	NCBI Sequence Viewer
	EDL94330	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001101071 ⟸ NM_001107601

- UniProtKB:

D3ZT89 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLDRDVGPTPMYPPTYLEPGIGRHTPYGNQTDYRIFELNKRLQNWTEECDNLWWDAFTTEFFED
DAMLTITFCLEDGPKRYTIGRTLIPRYFRSIFEGGATELYYVLKHPKEAFHSNFVSLDCDQGSM
VTQHGKPMFTQVCVEGRLYLEFMFDDMMRIKTWHFSIRQHRELIPRSILAMHAQDPQMLDQLSK
NITRCGLSNSTLNYLRLCVILEPMQELMSRHKTYSLSPRDCLKTCLFQKWQRMVAPPAEPARQQ
PSKRRKRKMSGGSTMSSGGGNTNNSNSKKKSPASTFALSSQVPDVMVVGEPTLMGGEFGDEDER
LITRLENTQFDAANGIDDEDSFNNSPALGANSPWNSKPPSSQESKSENPTSQASQ

hide sequence

RefSeq Acc Id:

XP_006231556 ⟸ XM_006231494

- Peptide Label:

isoform X2

- Sequence:

show sequence

MSVGCACPGCSSKSFKLYSPKEPPNGNAFPPFHPGTMLDRDVGPTPMYPPTYLEPGIGRHTPYG
NQTDYRIFELNKRLQNWTEECDNLWWDAFTTEFFEDDAMLTITFCLEDGPKRYTIGRTLIPRYF
RSIFEGGATELYYVLKHPKEAFHSNFVSLDCDQGSMVTQHGKPMFTQVCVEGRLYLEFMFDDMM
RIKTWHFSIRQHRELIPRSILAMHAQDPQMLDQLSKNITRCGLSNSTLNYLRLCVILEPMQELM
SRHKTYSLSPRDCLKTCLFQKWQRMVAPPAEPARQQPSKRRKRKMSGGSTMSSGGGNTNNSNSK
KKSPASTFALSSQDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANGIDDEDSFNNSPALGA
NSPWNSKPPSSQESKSENPTSQASQ

hide sequence

RefSeq Acc Id:	XP_006231555 ⟸ XM_006231493
- Peptide Label:	isoform X1
- UniProtKB:	A0A0G2JVQ2 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSVGCACPGCSSKSFKLYSPKEPPNGNAFPPFHPGTMLDRDVGPTPMYPPTYLEPGIGRHTPYG NQTDYRIFELNKRLQNWTEECDNLWWDAFTTEFFEDDAMLTITFCLEDGPKRYTIGRTLIPRYF RSIFEGGATELYYVLKHPKEAFHSNFVSLDCDQGSMVTQHGKPMFTQVCVEGRLYLEFMFDDMM RIKTWHFSIRQHRELIPRSILAMHAQDPQMLDQLSKNITRCGLSNSTLNYLRLCVILEPMQELM SRHKTYSLSPRDCLKTCLFQKWQRMVAPPAEPARQQPSKRRKRKMSGGSTMSSGGGNTNNSNSK KKSPASTFALSSQVPDVMVVGEPTLMGGEFGDEDERLITRLENTQFDAANGIDDEDSFNNSPAL GANSPWNSKPPSSQESKSENPTSQASQ hide sequence

RefSeq Acc Id:

XP_017444779 ⟸ XM_017589290

- Peptide Label:

isoform X4

- Sequence:

show sequence

MSVGCACPGCSSKSFKLYSPKEPPNGNAFPPFHPGTMLDRDVGPTPMYPPTYLEPGIGRHTPYG
NQTDYRIFELNKRLQNWTEECDNLWWDAFTTEFFEDDAMLTITFCLEDGPKRYTIGRTLIPRYF
RSIFEGGATELYYVLKHPKEAFHSNFVSLDCDQGSMVTQHGKPMFTQVCVEGRLYLEFMFDDMM
RIKTWHFSIRQHRELIPRSILAMHAQDPQMLDQLSKNITRCGLSNSTLNYLRLCVILEPMQELM
SRHKTYSLSPRDCLKTCLFQKWQRMVAPPAEPARQQPSKRRKRKMSGGSTMSSGGGNTNNSNSK
KKSPASTFALSSQKSQLVNI

hide sequence

RefSeq Acc Id:

XP_017444778 ⟸ XM_017589289

- Peptide Label:

isoform X3

- Sequence:

show sequence

MSVGCACPGCSSKSFKLYSPKEPPNGNAFPPFHPGTMLDRDVGPTPMYPPTYLEPGIGRHTPYG
NQTDYRIFELNKRLQNWTEECDNLWWDAFTTEFFEDDAMLTITFCLEDGPKRYTIGRTLIPRYF
RSIFEGGATELYYVLKHPKEAFHSNFVSLDCDQGSMVTQHGKPMFTQVCVEGRLYLEFMFDDMM
RIKTWHFSIRQHRELIPRSILAMHAQDPQMLDQLSKNITRCGLSNSTLNYLRLCVILEPMQELM
SRHKTYSLSPRDCLKTCLFQKWQRMVAPPAEPARQQPSKRRKRKMSGGSTMSSGGGNTNNSNSK
KKSPASTFALSSQVPKSQLVNI

hide sequence

RefSeq Acc Id:

ENSRNOP00000069575 ⟸ ENSRNOT00000079483

RefSeq Acc Id:

ENSRNOP00000042807 ⟸ ENSRNOT00000040904

RefSeq Acc Id:

ENSRNOP00000083694 ⟸ ENSRNOT00000120124

RefSeq Acc Id:

ENSRNOP00000080017 ⟸ ENSRNOT00000102680

Protein Domains

LIM interaction

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0A0G2JVQ2-F1-model_v2	AlphaFold	A0A0G2JVQ2	1-411	view protein structure

Transcriptome

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

Promoters

RGD ID:

13690966

Promoter ID:

EPDNEW_R1480

Type:

initiation region

Name:

Ldb1_1

Description:

LIM domain binding 1

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	1	265,798,260 - 265,798,320	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310359	AgrOrtholog
BioCyc Gene	G2FUF-55531	BioCyc
Ensembl Genes	ENSRNOG00000018468	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000042807	ENTREZGENE
	ENSRNOP00000042807.3	UniProtKB/TrEMBL
	ENSRNOP00000069575	ENTREZGENE
	ENSRNOP00000069575.1	UniProtKB/TrEMBL
	ENSRNOP00000080017.1	UniProtKB/TrEMBL
	ENSRNOP00000083694	ENTREZGENE
	ENSRNOP00000083694.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000040904	ENTREZGENE
	ENSRNOT00000040904.6	UniProtKB/TrEMBL
	ENSRNOT00000079483	ENTREZGENE
	ENSRNOT00000079483.2	UniProtKB/TrEMBL
	ENSRNOT00000102680.1	UniProtKB/TrEMBL
	ENSRNOT00000120124	ENTREZGENE
	ENSRNOT00000120124.1	UniProtKB/TrEMBL
Gene3D-CATH	Cysteine Rich Protein	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7930401	IMAGE-MGC_LOAD
InterPro	LID	UniProtKB/TrEMBL
	LIM-dom_bd/SEUSS	UniProtKB/TrEMBL
KEGG Report	rno:309447	UniProtKB/TrEMBL
MGC_CLONE	MGC:188507	IMAGE-MGC_LOAD
NCBI Gene	309447	ENTREZGENE
PANTHER	LIM_bd	UniProtKB/TrEMBL
	PTHR10378:SF7	UniProtKB/TrEMBL
Pfam	LID	UniProtKB/TrEMBL
	LIM_bind	UniProtKB/TrEMBL
PhenoGen	Ldb1	PhenoGen
PROSITE	LID	UniProtKB/TrEMBL
UniProt	A0A0G2JVQ2	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I5ZVT6_RAT	UniProtKB/TrEMBL
	A0A8I6G409_RAT	UniProtKB/TrEMBL
	B2RYF3_RAT	UniProtKB/TrEMBL
	D3ZT89	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Ldb1	LIM domain binding 1	Ldb1_predicted	LIM domain binding 1 (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Ldb1_predicted	LIM domain binding 1 (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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