Sdf2l1 (stromal cell-derived factor 2-like 1) - Rat Genome Database

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Gene: Sdf2l1 (stromal cell-derived factor 2-like 1) Mus musculus
Analyze
Symbol: Sdf2l1
Name: stromal cell-derived factor 2-like 1
RGD ID: 1320781
MGI Page MGI
Description: Predicted to enable ATPase binding activity; chaperone binding activity; and misfolded protein binding activity. Predicted to be involved in chaperone cofactor-dependent protein refolding. Predicted to act upstream of or within ER-associated misfolded protein catabolic process and regulation of apoptotic process. Part of endoplasmic reticulum chaperone complex. Is expressed in ventricular layer. Orthologous to human SDF2L1 (stromal cell derived factor 2 like 1).
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: SDF2-like protein 1; stromal cell-derived factor 2-like protein 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391616,948,002 - 16,950,247 (-)NCBIGRCm39mm39
GRCm39 Ensembl1616,948,002 - 16,950,247 (-)Ensembl
GRCm381617,130,138 - 17,132,383 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,130,138 - 17,132,383 (-)EnsemblGRCm38mm10GRCm38
MGSCv371617,130,231 - 17,132,476 (-)NCBIGRCm37mm9NCBIm37
MGSCv361617,043,701 - 17,045,928 (-)NCBImm8
Celera1617,702,932 - 17,705,177 (-)NCBICelera
Cytogenetic Map16A3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (EXP)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (EXP)
6-propyl-2-thiouracil  (ISO)
aconitine  (ISO)
Actein  (ISO)
afimoxifene  (ISO)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
avobenzone  (ISO)
beauvericin  (ISO)
bisphenol A  (ISO)
C60 fullerene  (ISO)
cadmium dichloride  (ISO)
carbon nanotube  (EXP,ISO)
chloroacetaldehyde  (ISO)
chloropicrin  (ISO)
choline  (EXP)
cidofovir anhydrous  (ISO)
ciguatoxin CTX1B  (EXP)
cisplatin  (ISO)
clobetasol  (EXP)
clofibrate  (EXP)
cobalt dichloride  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
Cuprizon  (ISO)
cyclosporin A  (EXP,ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dichloroacetic acid  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
endosulfan  (ISO)
enniatin  (ISO)
ethanol  (EXP)
ethyl methanesulfonate  (ISO)
folic acid  (EXP)
formaldehyde  (ISO)
furan  (ISO)
gentamycin  (ISO)
glafenine  (ISO)
glutathione  (ISO)
hydralazine  (ISO)
hydrogen cyanide  (EXP)
hydrogen peroxide  (ISO)
hydrogen sulfide  (EXP)
indometacin  (ISO)
isoprenaline  (EXP)
isotretinoin  (ISO)
L-methionine  (EXP)
lead diacetate  (EXP)
lipopolysaccharide  (EXP)
metformin  (ISO)
methyl methanesulfonate  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
naphthalene  (EXP)
nickel atom  (ISO)
nimesulide  (ISO)
ozone  (EXP)
paracetamol  (EXP,ISO)
perfluorononanoic acid  (ISO)
phenobarbital  (ISO)
pirinixic acid  (EXP,ISO)
potassium cyanide  (EXP)
progesterone  (ISO)
quartz  (ISO)
quercetin  (ISO)
quinolin-8-ol  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
sodium fluoride  (EXP)
tacrolimus hydrate  (EXP)
tamoxifen  (EXP)
temozolomide  (ISO)
testosterone  (EXP)
tetrachloromethane  (EXP)
thapsigargin  (ISO)
thioacetamide  (ISO)
titanium dioxide  (EXP)
trichloroethene  (EXP,ISO)
troglitazone  (EXP,ISO)
tunicamycin  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (ISO)
vitamin E  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:11162531   PMID:11278416   PMID:12475965   PMID:12477932   PMID:14610273   PMID:15489334   PMID:16602821   PMID:21267068   PMID:21677750   PMID:21873635   PMID:23444373   PMID:25147951  
PMID:25312643   PMID:27113764   PMID:28190767   PMID:29091030   PMID:30333137   PMID:30550785   PMID:30814508   PMID:32325033  


Genomics

Comparative Map Data
Sdf2l1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391616,948,002 - 16,950,247 (-)NCBIGRCm39mm39
GRCm39 Ensembl1616,948,002 - 16,950,247 (-)Ensembl
GRCm381617,130,138 - 17,132,383 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,130,138 - 17,132,383 (-)EnsemblGRCm38mm10GRCm38
MGSCv371617,130,231 - 17,132,476 (-)NCBIGRCm37mm9NCBIm37
MGSCv361617,043,701 - 17,045,928 (-)NCBImm8
Celera1617,702,932 - 17,705,177 (-)NCBICelera
Cytogenetic Map16A3NCBI
SDF2L1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2221,642,302 - 21,644,299 (+)EnsemblGRCh38hg38GRCh38
GRCh382221,642,302 - 21,644,299 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372221,996,591 - 21,998,588 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362220,326,542 - 20,328,588 (+)NCBINCBI36hg18NCBI36
Build 342220,321,095 - 20,323,142NCBI
Celera225,814,082 - 5,816,128 (+)NCBI
Cytogenetic Map22q11.21NCBI
HuRef224,954,363 - 4,956,409 (+)NCBIHuRef
CHM1_12221,996,740 - 21,998,786 (+)NCBICHM1_1
Sdf2l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21183,872,659 - 83,874,902 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1183,872,659 - 83,874,902 (+)Ensembl
Rnor_6.01188,122,271 - 88,124,513 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,122,271 - 88,124,513 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,174,846 - 91,177,088 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,878,093 - 85,880,335 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1182,628,352 - 82,630,594 (+)NCBICelera
Cytogenetic Map11q23NCBI
Sdf2l1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,468,302 - 17,470,296 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,468,302 - 17,470,296 (-)NCBIChiLan1.0ChiLan1.0
SDF2L1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12220,248,566 - 20,250,607 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2220,248,566 - 20,250,607 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0223,764,899 - 3,766,932 (+)NCBIMhudiblu_PPA_v0panPan3
SDF2L1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,918,788 - 30,920,873 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2630,918,811 - 30,920,868 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,876,092 - 30,878,133 (+)NCBI
ROS_Cfam_1.02632,324,590 - 32,326,641 (+)NCBI
ROS_Cfam_1.0 Ensembl2632,324,324 - 32,326,636 (+)Ensembl
UMICH_Zoey_3.12630,373,930 - 30,375,976 (+)NCBI
UNSW_CanFamBas_1.02629,997,658 - 29,999,698 (+)NCBI
UU_Cfam_GSD_1.02631,087,579 - 31,089,621 (+)NCBI
Sdf2l1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118140,702,130 - 140,704,142 (+)NCBI
SpeTri2.0NW_0049366192,049,920 - 2,051,944 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDF2L1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11450,249,607 - 50,251,636 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,700,127 - 53,702,117 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SDF2L1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1194,465,795 - 4,467,882 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl194,465,797 - 4,467,761 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660852,529,331 - 2,532,763 (+)NCBIVero_WHO_p1.0
Sdf2l1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247471,195,043 - 1,197,105 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH129561  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381617,130,404 - 17,130,562UniSTSGRCm38
MGSCv371617,130,497 - 17,130,655UniSTSGRCm37
Celera1617,703,198 - 17,703,356UniSTS
Cytogenetic Map16A3UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141060Pbwg19_mpostnatal body weight growth 19 (mouse)Not determined16120963024Mouse
1300632Loca2_mlocomotor activity 2 (mouse)Not determined16122682710Mouse
10043879Adip25_madiposity 25 (mouse)Not determined16122702454Mouse
1301575Tanidd3_mtally ho associated non-insulin dependednt diabetes mellitus 3 (mouse)Not determined16123079875Mouse
1301970Heal11_mwound healing/regeneration 11 (mouse)Not determined16124445989Mouse
4141468Nhdlq10_mnon-HDL QTL 10 (mouse)Not determined16124445989Mouse
1301384Dice1_mdetermination of interleukin 4 commitment 1 (mouse)Not determined16128616494Mouse
10402497Lmr23_mleishmaniasis resistance 23 (mouse)Not determined16129856336Mouse
1301559Bbaa19_mB.burgdorferi-associated arthritis 19 (mouse)Not determined16130249113Mouse
10412289Ppsl_mplasma P-selectin levels (mouse)Not determined16130996708Mouse
27095908Scvln7_msacral vertebrae length 2, 5 week (mouse)16350000040000000Mouse
27226768Tibl9_mtibia length 9, 5 week (mouse)16350000051600000Mouse
27226785Feml12_mfemur length 12, 5 week (mouse)16350000064800000Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16400000064800000Mouse
38501069Tip4_mtuberculosis immunophenotype 4, IFN-g level (mouse)16450000044700000Mouse
1301443Mopkd2_mmodifier of polycystic kidney disease progression 2 (mouse)Not determined16482756438827664Mouse
1300656Bgeq15_mbody growth early QTL 15 (mouse)Not determined16595650239956690Mouse
1301945Skl7_mskeletal size (tail length) 7 (mouse)Not determined16595650239956690Mouse
1300987Skull23_mskull morphology 23 (mouse)Not determined16595650239956690Mouse
1300943Skts9_mskin tumor susceptibility 9 (mouse)Not determined16595650239956690Mouse
4141010Bbq1_mbrain and behavior QTL 1 (mouse)Not determined16665914535200846Mouse
1357763Lp1_mlymphocyte proliferation 1 (mouse)Not determined16672511565669666Mouse
4142460Nilac10_mnicotine induced locomotor activity 10 (mouse)Not determined16731904229406653Mouse
11251724Ewc6_methanol withdrawal and consumption 6 (mouse)16840730242407302Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16860000091100000Mouse
10043978Obq35_mobesity QTL 35 (mouse)Not determined161006288144062881Mouse
1301086Lprm5_mlymphoproliferation modifier 5 (mouse)Not determined161203007246030171Mouse
1301841Lrnx9_mlearning-contextual 9 (mouse)Not determined161240654246406653Mouse
15092082Igly9_mIgG glycosylation 9, GP17b (mouse)161495735920284763Mouse
10045614Rapop6_mradiation-induced apoptosis 6 (mouse)Not determined161498410348984214Mouse
4142236Pstc4_mperiosteal circumference 4 (mouse)Not determined161570409149704294Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:179
Count of miRNA genes:154
Interacting mature miRNAs:169
Transcripts:ENSMUST00000023453
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000023453   ⟹   ENSMUSP00000023453
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1616,948,002 - 16,950,247 (-)Ensembl
GRCm38.p6 Ensembl1617,130,138 - 17,132,383 (-)Ensembl
RefSeq Acc Id: NM_022324   ⟹   NP_071719
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391616,948,002 - 16,950,247 (-)NCBI
GRCm381617,130,138 - 17,132,383 (-)ENTREZGENE
MGSCv371617,130,231 - 17,132,476 (-)RGD
Celera1617,702,932 - 17,705,177 (-)RGD
cM Map16 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_071719 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH53425 (Get FASTA)   NCBI Sequence Viewer  
  BAB18276 (Get FASTA)   NCBI Sequence Viewer  
  BAB18278 (Get FASTA)   NCBI Sequence Viewer  
  EDK97448 (Get FASTA)   NCBI Sequence Viewer  
  Q9ESP1 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_071719   ⟸   NM_022324
- Peptide Label: precursor
- UniProtKB: Q9ESP1 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000023453   ⟸   ENSMUST00000023453
Protein Domains
MIR

Promoters
RGD ID:6827486
Promoter ID:MM_KWN:20283
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:NM_022324
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361617,132,216 - 17,132,802 (-)MPROMDB
RGD ID:8685584
Promoter ID:EPDNEW_M20823
Type:initiation region
Name:Sdf2l1_1
Description:Mus musculus stromal cell-derived factor 2-like 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381617,132,340 - 17,132,400EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2149842 AgrOrtholog
Ensembl Genes ENSMUSG00000022769 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000023453 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000023453 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro MIR_dom_sf UniProtKB/Swiss-Prot
  MIR_motif UniProtKB/Swiss-Prot
KEGG Report mmu:64136 UniProtKB/Swiss-Prot
MGD MGI:2149842 ENTREZGENE
NCBI Gene 64136 ENTREZGENE
Pfam MIR UniProtKB/Swiss-Prot
PhenoGen Sdf2l1 PhenoGen
PROSITE ER_TARGET UniProtKB/Swiss-Prot
  MIR UniProtKB/Swiss-Prot
SMART MIR UniProtKB/Swiss-Prot
Superfamily-SCOP SSF82109 UniProtKB/Swiss-Prot
UniProt Q9ESP1 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q9ESP2 UniProtKB/Swiss-Prot