SDF4 (stromal cell derived factor 4) - Rat Genome Database

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Gene: SDF4 (stromal cell derived factor 4) Pan paniscus
Analyze
Symbol: SDF4
Name: stromal cell derived factor 4
RGD ID: 11971808
Description: ENCODES a protein that exhibits identical protein binding (ortholog); INVOLVED IN cerebellum development (ortholog); maintenance of synapse structure (ortholog); response to ethanol (ortholog); ASSOCIATED WITH chromosome 1p36 deletion syndrome (ortholog); congenital myasthenic syndrome 8 (ortholog); dilated cardiomyopathy 1LL (ortholog); FOUND IN cytoplasm (ortholog); plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly
Position:
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21226,993,607 - 227,009,286 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,690,329 - 225,705,966 (+)NCBINHGRI_mPanPan1
PanPan1.111,173,925 - 1,190,390 (-)NCBIpanpan1.1PanPan1.1panPan2


References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SDF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21226,993,607 - 227,009,286 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11225,690,329 - 225,705,966 (+)NCBINHGRI_mPanPan1
PanPan1.111,173,925 - 1,190,390 (-)NCBIpanpan1.1PanPan1.1panPan2
SDF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811,216,931 - 1,232,001 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11,216,931 - 1,232,031 (-)EnsemblGRCh38hg38GRCh38
GRCh3711,152,311 - 1,167,381 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611,142,151 - 1,157,274 (-)NCBINCBI36Build 36hg18NCBI36
Build 3411,192,234 - 1,207,334NCBI
Celera11,416,207 - 1,431,366 (+)NCBICelera
Cytogenetic Map1p36.33NCBI
HuRef1423,986 - 439,143 (-)NCBIHuRef
CHM1_111,138,762 - 1,153,919 (-)NCBICHM1_1
T2T-CHM13v2.01645,388 - 660,462 (-)NCBIT2T-CHM13v2.0
Sdf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394156,077,300 - 156,098,067 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4156,077,329 - 156,098,067 (+)EnsemblGRCm39 Ensembl
GRCm384155,992,843 - 156,013,610 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4155,992,872 - 156,013,610 (+)EnsemblGRCm38mm10GRCm38
MGSCv374155,367,023 - 155,387,719 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364154,836,714 - 154,857,410 (+)NCBIMGSCv36mm8
Celera4158,256,076 - 158,276,364 (+)NCBICelera
Cytogenetic Map4E2NCBI
cM Map487.66NCBI
Sdf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85171,868,591 - 171,885,827 (+)NCBIGRCr8
mRatBN7.25166,586,581 - 166,606,661 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5166,586,390 - 166,604,521 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5169,290,258 - 169,307,133 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05171,111,682 - 171,128,555 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05171,074,216 - 171,091,087 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05173,425,922 - 173,444,478 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5173,425,907 - 173,444,620 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05176,901,543 - 176,918,497 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45172,836,094 - 172,853,044 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.15172,850,036 - 172,863,284 (+)NCBI
Celera5164,787,377 - 164,804,459 (+)NCBICelera
Cytogenetic Map5q36NCBI
Sdf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554869,555,364 - 9,567,340 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554869,555,773 - 9,565,310 (+)NCBIChiLan1.0ChiLan1.0
SDF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1556,407,506 - 56,421,515 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl556,407,807 - 56,421,430 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha556,484,483 - 56,498,492 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0556,610,405 - 56,624,414 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl556,610,409 - 56,624,362 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1556,601,139 - 56,615,150 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0556,493,416 - 56,507,429 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0556,883,417 - 56,897,430 (-)NCBIUU_Cfam_GSD_1.0
Sdf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505827,567,647 - 27,576,851 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367371,891,415 - 1,898,904 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367371,889,123 - 1,898,303 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SDF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl663,529,853 - 63,544,944 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1663,529,853 - 63,539,979 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2657,999,040 - 58,008,413 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SDF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120130,212,962 - 130,228,831 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20130,216,225 - 130,228,962 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605434,781,559 - 34,797,557 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sdf4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248188,365,359 - 8,371,386 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248188,362,107 - 8,371,565 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: XM_034951728   ⟹   XP_034807619
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21226,993,607 - 227,009,286 (+)NCBI
NHGRI_mPanPan11225,690,329 - 225,705,966 (+)NCBI
RefSeq Acc Id: XM_063595197   ⟹   XP_063451267
Type: CODING
Position:
Bonobo AssemblyChrPosition (strand)Source
NHGRI_mPanPan1-v21226,993,610 - 227,009,286 (+)NCBI
Protein Sequences
Protein RefSeqs XP_034807619 (Get FASTA)   NCBI Sequence Viewer  
  XP_063451267 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSPPAP00000025889.1
  ENSPPAP00000025894.1
  ENSPPAP00000025898.1
Reference Protein Sequences
RefSeq Acc Id: XP_034807619   ⟸   XM_034951728
- Peptide Label: isoform X2
- UniProtKB: A0A2R9B8H3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063451267   ⟸   XM_063595197
- Peptide Label: isoform X1
Protein Domains
EF-hand


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSPPAG00000036063 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSPPAT00000048719.1 UniProtKB/TrEMBL
  ENSPPAT00000048725.1 UniProtKB/TrEMBL
  ENSPPAT00000048728.1 UniProtKB/TrEMBL
Gene3D-CATH EF-hand UniProtKB/TrEMBL
InterPro CAB45 UniProtKB/TrEMBL
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
NCBI Gene SDF4 ENTREZGENE
PANTHER 45 KDA CALCIUM-BINDING PROTEIN UniProtKB/TrEMBL
  RETICULOCALBIN UniProtKB/TrEMBL
Pfam EF-hand_5 UniProtKB/TrEMBL
  EF-hand_7 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
UniProt A0A2R9B8G3_PANPA UniProtKB/TrEMBL
  A0A2R9B8H1_PANPA UniProtKB/TrEMBL
  A0A2R9B8H3 ENTREZGENE, UniProtKB/TrEMBL