SDF2 (stromal cell derived factor 2) - Rat Genome Database

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Gene: SDF2 (stromal cell derived factor 2) Chlorocebus sabaeus
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Symbol: SDF2
Name: stromal cell derived factor 2
RGD ID: 18479173
Description: ENCODES a protein that exhibits misfolded protein binding (inferred); INVOLVED IN chaperone cofactor-dependent protein refolding (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN endoplasmic reticulum (inferred); protein folding chaperone complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: stromal cell-derived factor 2
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11622,418,480 - 22,432,055 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1622,419,116 - 22,431,583 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660757,693,089 - 7,706,243 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
SDF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11622,418,480 - 22,432,055 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1622,419,116 - 22,431,583 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660757,693,089 - 7,706,243 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SDF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381728,648,346 - 28,662,194 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1728,648,346 - 28,662,189 (-)EnsemblGRCh38hg38GRCh38
GRCh371726,975,364 - 26,989,212 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361723,999,734 - 24,013,060 (-)NCBINCBI36Build 36hg18NCBI36
Build 341723,999,733 - 24,013,060NCBI
Celera1723,834,634 - 23,847,960 (-)NCBICelera
Cytogenetic Map17q11.2NCBI
HuRef1723,183,968 - 23,197,841 (-)NCBIHuRef
CHM1_11727,037,846 - 27,051,679 (-)NCBICHM1_1
T2T-CHM13v2.01729,591,070 - 29,604,958 (-)NCBIT2T-CHM13v2.0
Sdf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391178,136,817 - 78,146,310 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1178,136,572 - 78,146,322 (+)EnsemblGRCm39 Ensembl
GRCm381178,245,746 - 78,255,496 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1178,245,746 - 78,255,496 (+)EnsemblGRCm38mm10GRCm38
MGSCv371178,059,248 - 78,068,998 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361178,884,296 - 78,894,036 (+)NCBIMGSCv36mm8
MGSCv361178,061,941 - 78,071,681 (+)NCBIMGSCv36mm8
Cytogenetic Map11B5NCBI
cM Map1146.74NCBI
Sdf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81063,638,634 - 63,649,109 (+)NCBIGRCr8
mRatBN7.21063,140,563 - 63,151,038 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1063,140,563 - 63,201,109 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1067,772,847 - 67,783,322 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01067,278,202 - 67,288,677 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01062,749,268 - 62,759,764 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01065,507,364 - 65,517,839 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1065,507,364 - 65,517,838 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01066,119,398 - 66,129,873 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41064,378,703 - 64,389,178 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11064,392,334 - 64,402,801 (-)NCBI
Celera1062,118,249 - 62,128,724 (+)NCBICelera
Cytogenetic Map10q25NCBI
Sdf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554814,497,611 - 4,506,224 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554814,497,611 - 4,506,224 (+)NCBIChiLan1.0ChiLan1.0
SDF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21935,797,303 - 35,810,812 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11737,677,585 - 37,690,985 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01728,113,057 - 28,126,610 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11728,617,411 - 28,630,925 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1728,617,411 - 28,630,925 (+)Ensemblpanpan1.1panPan2
SDF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1942,849,528 - 42,859,026 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl942,850,063 - 42,858,984 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha942,005,835 - 42,015,335 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0943,667,969 - 43,677,493 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl943,667,386 - 43,677,818 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1942,451,447 - 42,460,936 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0942,743,661 - 42,753,178 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0942,821,435 - 42,830,931 (-)NCBIUU_Cfam_GSD_1.0
Sdf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560241,991,444 - 42,000,421 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365384,869,389 - 4,878,344 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365384,869,389 - 4,878,365 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1244,896,728 - 44,907,090 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11244,896,937 - 44,907,120 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21246,881,807 - 46,891,983 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Sdf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247861,226,025 - 1,238,016 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247861,230,035 - 1,237,974 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 36 17 60
Low 3
Below cutoff

Sequence


RefSeq Acc Id: ENSCSAT00000005240   ⟹   ENSCSAP00000003468
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1622,419,116 - 22,431,583 (-)Ensembl
RefSeq Acc Id: XM_008010809   ⟹   XP_008009000
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11622,418,480 - 22,432,055 (-)NCBI
Vero_WHO_p1.0NW_0236660757,693,089 - 7,706,243 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_008009000 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000003468.1
RefSeq Acc Id: XP_008009000   ⟸   XM_008010809
- UniProtKB: A0A0D9R4C9 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000003468   ⟸   ENSCSAT00000005240


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000007196 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000005240.1 UniProtKB/TrEMBL
Gene3D-CATH 2.80.10.50 UniProtKB/TrEMBL
InterPro MIR_dom_sf UniProtKB/TrEMBL
  MIR_motif UniProtKB/TrEMBL
KEGG Report csab:103242627 UniProtKB/TrEMBL
NCBI Gene SDF2 ENTREZGENE
PANTHER STROMAL CELL-DERIVED FACTOR 2 UniProtKB/TrEMBL
  STROMAL CELL-DERIVED FACTOR 2-LIKE PROTEIN UniProtKB/TrEMBL
Pfam MIR UniProtKB/TrEMBL
PROSITE MIR UniProtKB/TrEMBL
SMART MIR UniProtKB/TrEMBL
Superfamily-SCOP SSF82109 UniProtKB/TrEMBL
UniProt A0A0D9R4C9 ENTREZGENE, UniProtKB/TrEMBL