Sdf2l1 (stromal cell-derived factor 2-like 1)

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Gene: Sdf2l1 (stromal cell-derived factor 2-like 1) Rattus norvegicus

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Symbol:

Sdf2l1

Name:

stromal cell-derived factor 2-like 1

RGD ID:

1585844

Description:

Enables ATPase binding activity; misfolded protein binding activity; and protein-folding chaperone binding activity. Acts upstream of or within ERAD pathway; cellular response to misfolded protein; and regulation of apoptotic process. Located in endoplasmic reticulum and membrane. Used to study type 2 diabetes mellitus. Orthologous to human SDF2L1 (stromal cell derived factor 2 like 1); PARTICIPATES IN codeine and morphine pharmacodynamics pathway; codeine and morphine pharmacokinetics pathway; etoposide pharmacodynamics pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC680945; similar to stromal cell-derived factor 2-like 1; stromal cell-derived factor 2-like protein 1

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):	SDF2L1 (stromal cell derived factor 2 like 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Sdf2l1 (stromal cell-derived factor 2-like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sdf2l1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SDF2L1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SDF2L1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sdf2l1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SDF2L1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SDF2L1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sdf2l1 (stromal cell derived factor 2 like 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SDF2L1 (stromal cell derived factor 2 like 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sdf2l1 (stromal cell-derived factor 2-like 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sdf2l1 (stromal cell-derived factor 2-like 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG11999	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	R12E2.13	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	sdf2l1	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PhylomeDB)

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
GRCr8	11	97,376,878 - 97,379,120 (+)	NCBI		GRCr8
mRatBN7.2	11	83,872,659 - 83,874,902 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	83,872,659 - 83,874,902 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	92,596,386 - 92,598,629 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	85,257,528 - 85,259,771 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	84,311,108 - 84,313,351 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	88,122,271 - 88,124,513 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	88,122,271 - 88,124,513 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	91,174,846 - 91,177,088 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	85,878,093 - 85,880,335 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	11	82,628,352 - 82,630,594 (+)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

chromosome 22q11.2 deletion syndrome, distal (ISO)

Crohn's disease (ISO)

DiGeorge syndrome (ISO)

Prostatic Neoplasms (ISO)

Spontaneous Abortions (ISO)

type 2 diabetes mellitus (IAGP)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

1,2-dichloroethane (ISO)

17beta-estradiol (EXP,ISO)

17beta-hydroxy-5alpha-androstan-3-one (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

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

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

2-hydroxypropanoic acid (ISO)

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

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

aconitine (EXP)

Actein (EXP)

afimoxifene (ISO)

antirheumatic drug (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

avobenzone (ISO)

beauvericin (ISO)

Benoxacor (ISO)

bisphenol A (EXP,ISO)

C60 fullerene (EXP)

cadmium dichloride (EXP,ISO)

cantharidin (ISO)

carbon nanotube (EXP,ISO)

chloroacetaldehyde (ISO)

chloropicrin (ISO)

choline (ISO)

cidofovir anhydrous (ISO)

ciguatoxin CTX1B (ISO)

cisplatin (ISO)

clobetasol (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

copper(II) chloride (ISO)

copper(II) sulfate (ISO)

coumarin (EXP)

Cuprizon (EXP)

cyclosporin A (EXP,ISO)

dexamethasone (ISO)

diallyl trisulfide (ISO)

diarsenic trioxide (ISO)

Dibutyl phosphate (ISO)

dichloroacetic acid (ISO)

dioxygen (ISO)

diquat (ISO)

dorsomorphin (ISO)

endosulfan (EXP)

enniatin (ISO)

epoxiconazole (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

folic acid (ISO)

formaldehyde (ISO)

furan (EXP)

gentamycin (EXP)

glafenine (EXP)

glutathione (EXP)

hydralazine (ISO)

hydrogen cyanide (ISO)

hydrogen peroxide (ISO)

hydrogen sulfide (ISO)

indometacin (ISO)

isoprenaline (ISO)

isotretinoin (ISO)

L-methionine (ISO)

lead diacetate (ISO)

lidocaine (EXP)

lipopolysaccharide (ISO)

metformin (EXP)

methyl methanesulfonate (ISO)

Monobutylphthalate (ISO)

N-methyl-4-phenylpyridinium (ISO)

naphthalene (ISO)

nickel atom (ISO)

nimesulide (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

perfluorononanoic acid (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (EXP)

phenobarbital (ISO)

pirinixic acid (EXP,ISO)

potassium cyanide (ISO)

progesterone (ISO)

quartz (EXP)

quercetin (ISO)

quinolin-8-ol (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium dichromate (ISO)

sodium dodecyl sulfate (ISO)

sodium fluoride (ISO)

tacrolimus hydrate (ISO)

tamoxifen (ISO)

temozolomide (ISO)

testosterone (ISO)

tetrachloromethane (ISO)

thapsigargin (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (EXP,ISO)

troglitazone (EXP,ISO)

trovafloxacin (ISO)

tunicamycin (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vitamin E (ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to misfolded protein (IDA)

chaperone cofactor-dependent protein refolding (ISO)

ERAD pathway (IMP)

regulation of apoptotic process (IMP)

response to endoplasmic reticulum stress (IDA)

Cellular Component

endoplasmic reticulum (IDA,ISO)

endoplasmic reticulum chaperone complex (ISO)

membrane (IDA)

protein folding chaperone complex (ISO)

Molecular Function

ATPase binding (IDA)

misfolded protein binding (IDA,ISO)

protein binding (ISO)

protein-folding chaperone binding (IDA)

Molecular Pathway Annotations Click to see Annotation Detail View

codeine and morphine pharmacodynamics pathway (ISO)

codeine and morphine pharmacokinetics pathway (ISO)

etoposide pharmacodynamics pathway (ISO)

etoposide pharmacokinetics pathway (ISO)

ibuprofen pharmacodynamics pathway (ISO)

ibuprofen pharmacokinetics pathway (ISO)

irinotecan pharmacodynamics pathway (ISO)

irinotecan pharmacokinetics pathway (ISO)

paracetamol pharmacokinetics pathway (ISO)

phenytoin pharmacodynamics pathway (ISO)

retinol metabolic pathway (ISO)

sorafenib pharmacokinetics pathway (ISO)

vitamin A deficiency pathway (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.	SMPDB Annotation Import Pipeline	Pipeline to import SMPDB annotations from SMPDB into RGD
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
4.	SDF2L1 interacts with the ER-associated degradation machinery and retards the degradation of mutant proinsulin in pancreatic beta-cells.	Tiwari A, etal., J Cell Sci. 2013 May 1;126(Pt 9):1962-8. doi: 10.1242/jcs.117374. Epub 2013 Feb 26.
5.	Three interacting genomic loci incorporating two novel mutations underlie the evolution of diet-induced diabetes.	Yagil Y, etal., Mol Med. 2016 Jul 26;22. doi: 10.2119/molmed.2016.00114.

Additional References at PubMed

PMID:12475965	PMID:12477932

Genomics

Comparative Map Data

Sdf2l1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	97,376,878 - 97,379,120 (+)	NCBI		GRCr8
mRatBN7.2	11	83,872,659 - 83,874,902 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	83,872,659 - 83,874,902 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	92,596,386 - 92,598,629 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	85,257,528 - 85,259,771 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	84,311,108 - 84,313,351 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	88,122,271 - 88,124,513 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	88,122,271 - 88,124,513 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	91,174,846 - 91,177,088 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	85,878,093 - 85,880,335 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	11	82,628,352 - 82,630,594 (+)	NCBI		Celera
Cytogenetic Map	11	q23	NCBI

SDF2L1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	22	21,642,302 - 21,644,299 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	22	21,642,302 - 21,644,299 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	22	21,996,591 - 21,998,588 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	22	20,326,542 - 20,328,588 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	22	20,321,095 - 20,323,142	NCBI
Celera	22	5,814,082 - 5,816,128 (+)	NCBI		Celera
Cytogenetic Map	22	q11.21	NCBI
HuRef	22	4,954,363 - 4,956,409 (+)	NCBI		HuRef
CHM1_1	22	21,996,740 - 21,998,786 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	22	22,055,802 - 22,057,799 (+)	NCBI		T2T-CHM13v2.0

Sdf2l1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	16,948,002 - 16,950,247 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	16,948,002 - 16,950,247 (-)	Ensembl		GRCm39 Ensembl
GRCm38	16	17,130,138 - 17,132,383 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	17,130,138 - 17,132,383 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	17,130,231 - 17,132,476 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	17,043,701 - 17,045,928 (-)	NCBI		MGSCv36	mm8
Celera	16	17,702,932 - 17,705,177 (-)	NCBI		Celera
Cytogenetic Map	16	A3	NCBI
cM Map	16	10.62	NCBI

Sdf2l1
(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_004955442	17,468,302 - 17,470,296 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955442	17,468,302 - 17,470,296 (-)	NCBI	ChiLan1.0	ChiLan1.0

SDF2L1
(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	31,187,488 - 31,189,507 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	22	33,736,220 - 33,738,236 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	22	3,764,899 - 3,766,932 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	22	20,248,566 - 20,250,607 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	22	20,248,566 - 20,250,607 (+)	Ensembl	panpan1.1		panPan2

SDF2L1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	26	30,918,788 - 30,920,873 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	26	30,918,811 - 30,920,868 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	26	30,876,092 - 30,878,133 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	26	32,324,590 - 32,326,641 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	26	32,324,324 - 32,326,636 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	26	30,373,930 - 30,375,976 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	26	29,997,658 - 29,999,698 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	26	31,087,579 - 31,089,621 (+)	NCBI		UU_Cfam_GSD_1.0

Sdf2l1
(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_024405118	140,702,130 - 140,704,142 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936619	2,049,922 - 2,051,944 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936619	2,049,920 - 2,051,944 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SDF2L1
(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	50,246,710 - 50,251,642 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	14	50,249,607 - 50,251,636 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	14	53,700,127 - 53,702,117 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SDF2L1
(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	4,465,795 - 4,467,882 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	19	4,465,797 - 4,467,761 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666085	2,529,331 - 2,532,763 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sdf2l1
(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_004624747	1,195,055 - 1,197,105 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624747	1,195,043 - 1,197,105 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Sdf2l1
5 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	50
Count of miRNA genes:	44
Interacting mature miRNAs:	50
Transcripts:	ENSRNOT00000002540
Prediction methods:	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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	18976208	86241447	Rat
10058954	Gmadr7	Adrenal mass QTL 7	2.49	0.0049	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	60346590	86241447	Rat
1354593	Stl12	Serum triglyceride level QTL 12	3.36		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	11	66422148	86241447	Rat
724561	Plsm4	Polydactyly-luxate syndrome (PLS) morphotypes QTL 4		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	11	54457534	86241447	Rat
634339	Niddm50	Non-insulin dependent diabetes mellitus QTL 50	3.32		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	66422148	86241447	Rat
7411658	Foco27	Food consumption QTL 27	16.2	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	11	56351424	86241447	Rat

Markers in Region

RH129561

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	83,874,499 - 83,874,651 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	88,124,111 - 88,124,262	NCBI	Rnor6.0
Rnor_5.0	11	91,176,686 - 91,176,837	UniSTS	Rnor5.0
RGSC_v3.4	11	85,879,933 - 85,880,084	UniSTS	RGSC3.4
Celera	11	82,630,192 - 82,630,343	UniSTS
RH 3.4 Map	11	723.82	UniSTS
Cytogenetic Map	11	q23	UniSTS

RH129696

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	83,874,499 - 83,874,663 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	88,124,111 - 88,124,274	NCBI	Rnor6.0
Rnor_5.0	11	91,176,686 - 91,176,849	UniSTS	Rnor5.0
RGSC_v3.4	11	85,879,933 - 85,880,096	UniSTS	RGSC3.4
Celera	11	82,630,192 - 82,630,355	UniSTS
RH 3.4 Map	11	721.71	UniSTS
Cytogenetic Map	11	q23	UniSTS

BI287777

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	83,874,686 - 83,874,844 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	88,124,298 - 88,124,455	NCBI	Rnor6.0
Rnor_5.0	11	91,176,873 - 91,177,030	UniSTS	Rnor5.0
RGSC_v3.4	11	85,880,120 - 85,880,277	UniSTS	RGSC3.4
Celera	11	82,630,379 - 82,630,536	UniSTS
RH 3.4 Map	11	722.22	UniSTS
Cytogenetic Map	11	q23	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.

Download All Expressed Objects for this Gene

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

Nucleotide Sequences


RefSeq Transcripts	NM_001109433	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC128500	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC168889	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473999	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ225991	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230956	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000011	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000002540 ⟹ ENSRNOP00000002540

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	11	83,872,659 - 83,874,902 (+)	Ensembl
Rnor_6.0 Ensembl	11	88,122,271 - 88,124,513 (+)	Ensembl

RefSeq Acc Id:

NM_001109433 ⟹ NP_001102903

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	11	97,376,878 - 97,379,120 (+)	NCBI
mRatBN7.2	11	83,872,659 - 83,874,902 (+)	NCBI
Rnor_6.0	11	88,122,271 - 88,124,513 (+)	NCBI
Rnor_5.0	11	91,174,846 - 91,177,088 (+)	NCBI
RGSC_v3.4	11	85,878,093 - 85,880,335 (+)	RGD
Celera	11	82,628,352 - 82,630,594 (+)	RGD

Sequence:

show sequence

TTGAGGACGGAAGCGCCGAGGTCCAAAGCAACTGGAACCCGGCCGGCCGGCACGATGTTGGGCG
CGAGCCGCGGGTTAGCGGGTCTGACGCTGCTGGGGCTGCTGCTGGCGCTCTCGGTGCGGAGCGG
TGGCGCGTCGAAGGCCAGCGCCGGGCTAGTGACCTGCGGGTCAGTGCTGAAGCTACTCAACACC
CACCACAGAGTGCGGCTGCACTCACATGACATCAAATACGGATCCGGCAGCGGCCAACAGTCGG
TAACCGGCGTGGAGGCGTCCGACGATGCCAATAGTTACTGGCGGATTCGCGGCGGCTCCGAGGG
TGGGTGCCCGCGCGGGCTCCCAGTGCGCTGTGGGCAGGCAGTGCGGCTCACGCACGTGCTCACC
GGCAAGAACCTGCACACGCACCACTTCCCGTCACCGCTATCCAACAACCAGGAGGTGAGTGCTT
TTGGGGAAGACGGTGAGGGTGATGACCTGGACCTGTGGACAGTACGATGTTCTGGGCAACACTG
GGAGCGAGAGGCCAGTGTCCGTTTCCAGCATGTTGGCACCTCTGTGTTCCTGTCAGTTACTGGT
GAACAGTATGGTAACCCAATCCGTGGGCAGCATGAGGTGCATGGCATGCCTAGTGCCAATGCAC
ACAACACGTGGAAGGCCATGGAAGGAATCTTCATCAAGCCCGGAGCAGATCCCTCCACAGGTCA
CGATGAACTCTGAGCCGGATGGGAAGGGAGGGTGGCTGAGTGGGAATCCGCAGGGCTGCTCTTG
TGTAAGACTCTGTAGGGGCCCTCAAGTGCCTTTCTGATTAAAGAATGTTGGTTTGTGATTATTT
TTGCTGTACCCTGGGGAGGACCTGAGGGTGCTAGTCATATCTGTCCACATCATCATCTCACATG
TCTCAAGTACCTGTTCAAATAATTTTTGAGACCGTCCCACTATGTATCCCTGGCTGGCCTGGAA
CTCCCAGAGATCCACTTGCCTCTGCCTCCTGAGCGCTGGTATTAAAGGTGTATACGACCACAGC
TGGCCCCAACCTGTTCAATAAACTAATTTTTATTACAGTG

hide sequence

Protein Sequences


Protein RefSeqs	NP_001102903	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL77877	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000002540.4

RefSeq Acc Id:	NP_001102903 ⟸ NM_001109433
- Peptide Label:	precursor
- UniProtKB:	D4A9Y0 (UniProtKB/TrEMBL), A6JSN0 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLGASRGLAGLTLLGLLLALSVRSGGASKASAGLVTCGSVLKLLNTHHRVRLHSHDIKYGSGSG QQSVTGVEASDDANSYWRIRGGSEGGCPRGLPVRCGQAVRLTHVLTGKNLHTHHFPSPLSNNQE VSAFGEDGEGDDLDLWTVRCSGQHWEREASVRFQHVGTSVFLSVTGEQYGNPIRGQHEVHGMPS ANAHNTWKAMEGIFIKPGADPSTGHDEL hide sequence

Ensembl Acc Id:

ENSRNOP00000002540 ⟸ ENSRNOT00000002540

Protein Domains

MIR

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D4A9Y0-F1-model_v2	AlphaFold	D4A9Y0	1-220	view protein structure

Transcriptome

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

Promoters

RGD ID:

13698336

Promoter ID:

EPDNEW_R8861

Type:

initiation region

Name:

Sdf2l1_1

Description:

stromal cell-derived factor 2-like 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	11	88,122,288 - 88,122,348	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1585844	AgrOrtholog
BioCyc Gene	G2FUF-20575	BioCyc
Ensembl Genes	ENSRNOG00000001859	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000002540.6	UniProtKB/TrEMBL
Gene3D-CATH	2.80.10.50	UniProtKB/TrEMBL
InterPro	DUF4702	UniProtKB/TrEMBL
	MIR_dom_sf	UniProtKB/TrEMBL
	MIR_motif	UniProtKB/TrEMBL
KEGG Report	rno:680945	UniProtKB/TrEMBL
NCBI Gene	680945	ENTREZGENE
PANTHER	COILED-COIL DOMAIN-CONTAINING PROTEIN 116	UniProtKB/TrEMBL
	COILED-COIL DOMAIN-CONTAINING PROTEIN 116	UniProtKB/TrEMBL
	STROMAL CELL-DERIVED FACTOR 2-LIKE PROTEIN	UniProtKB/TrEMBL
	STROMAL CELL-DERIVED FACTOR 2-LIKE PROTEIN 1	UniProtKB/TrEMBL
Pfam	DUF4702	UniProtKB/TrEMBL
	MIR	UniProtKB/TrEMBL
PhenoGen	Sdf2l1	PhenoGen
PROSITE	MIR	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000001859	RatGTEx
SMART	MIR	UniProtKB/TrEMBL
Superfamily-SCOP	MIR	UniProtKB/TrEMBL
UniProt	A6JSM9_RAT	UniProtKB/TrEMBL
	A6JSN0	ENTREZGENE, UniProtKB/TrEMBL
	D4A9Y0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-07-08	Sdf2l1	stromal cell-derived factor 2-like 1	LOC683036	similar to stromal cell-derived factor 2-like 1	Data merged from RGD:1591572	1643240	APPROVED
2008-04-30	Sdf2l1	stromal cell-derived factor 2-like 1	Sdf2l1_predicted	stromal cell-derived factor 2-like 1 (predicted)	'predicted' is removed	2292626	APPROVED
2007-03-26	Sdf2l1_predicted	stromal cell-derived factor 2-like 1 (predicted)	LOC680945	similar to stromal cell-derived factor 2-like 1	Symbol and Name updated to reflect Human and Mouse nomenclature	1299863	PROVISIONAL
2006-11-20	LOC683036	similar to stromal cell-derived factor 2-like 1			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-11-19	LOC680945	similar to stromal cell-derived factor 2-like 1			Symbol and Name status set to provisional	70820	PROVISIONAL

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 - SMPDB

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