Slamf7 (SLAM family member 7) - Rat Genome Database

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Gene: Slamf7 (SLAM family member 7) Rattus norvegicus
Analyze
Symbol: Slamf7
Name: SLAM family member 7
RGD ID: 1560190
Description: Predicted to enable identical protein binding activity. Predicted to be involved in T cell activation. Predicted to act upstream of or within regulation of natural killer cell activation. Predicted to be located in endoplasmic reticulum and plasma membrane. Predicted to be active in external side of plasma membrane. Orthologous to human SLAMF7 (SLAM family member 7); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC364049; RGD1560190; similar to SLAM family member 7
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21384,135,656 - 84,154,528 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1384,136,899 - 84,154,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1386,642,848 - 86,659,679 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01388,040,677 - 88,057,506 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01385,240,026 - 85,256,866 (-)NCBIRnor_WKY
Rnor_6.01390,056,726 - 90,075,159 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1390,058,127 - 90,075,144 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01394,678,628 - 94,696,989 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41387,637,105 - 87,653,930 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1383,765,447 - 83,782,293 (-)NCBICelera
Cytogenetic Map13q24NCBI
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

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15153464   PMID:19151721   PMID:19648922   PMID:21982860  


Genomics

Comparative Map Data
Slamf7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21384,135,656 - 84,154,528 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1384,136,899 - 84,154,105 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1386,642,848 - 86,659,679 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01388,040,677 - 88,057,506 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01385,240,026 - 85,256,866 (-)NCBIRnor_WKY
Rnor_6.01390,056,726 - 90,075,159 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1390,058,127 - 90,075,144 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01394,678,628 - 94,696,989 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41387,637,105 - 87,653,930 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1383,765,447 - 83,782,293 (-)NCBICelera
Cytogenetic Map13q24NCBI
SLAMF7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381160,739,057 - 160,754,821 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1160,739,057 - 160,754,821 (+)EnsemblGRCh38hg38GRCh38
GRCh371160,708,847 - 160,724,611 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361158,975,701 - 158,991,225 (+)NCBINCBI36Build 36hg18NCBI36
Build 341157,522,149 - 157,537,673NCBI
Celera1133,777,800 - 133,793,320 (+)NCBICelera
Cytogenetic Map1q23.3NCBI
HuRef1132,065,275 - 132,080,797 (+)NCBIHuRef
CHM1_11162,104,443 - 162,119,967 (+)NCBICHM1_1
T2T-CHM13v2.01159,876,146 - 159,891,896 (+)NCBIT2T-CHM13v2.0
Slamf7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391171,459,971 - 171,480,605 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1171,459,971 - 171,480,603 (-)EnsemblGRCm39 Ensembl
GRCm381171,632,403 - 171,653,037 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1171,632,403 - 171,653,035 (-)EnsemblGRCm38mm10GRCm38
MGSCv371173,562,534 - 173,583,168 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361173,469,078 - 173,489,712 (-)NCBIMGSCv36mm8
Celera1174,487,265 - 174,507,984 (-)NCBICelera
Cytogenetic Map1H3NCBI
Slamf7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546812,439,841 - 12,458,000 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546812,440,157 - 12,457,445 (+)NCBIChiLan1.0ChiLan1.0
SLAMF7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11140,017,185 - 140,033,105 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1140,017,185 - 140,033,096 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01136,094,600 - 136,110,360 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
SLAMF7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13821,580,583 - 21,596,367 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3821,581,439 - 21,596,348 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3821,653,565 - 21,669,393 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03821,697,791 - 21,713,637 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3821,697,898 - 21,713,575 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13821,585,020 - 21,600,845 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03821,998,811 - 22,014,663 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03822,408,376 - 22,424,225 (-)NCBIUU_Cfam_GSD_1.0
Slamf7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050586,844,920 - 6,851,399 (+)NCBIHiC_Itri_2
SLAMF7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl489,759,872 - 89,785,692 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1489,762,080 - 89,785,748 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2497,461,897 - 97,482,128 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SLAMF7
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1203,204,784 - 3,219,275 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl203,202,661 - 3,219,199 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660382,243,017 - 2,259,398 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Slamf7
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624794520,739 - 537,952 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Slamf7
86 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:31
Interacting mature miRNAs:31
Transcripts:ENSRNOT00000038006
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat

Markers in Region
D7S2869  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21384,137,874 - 84,137,979 (+)MAPPERmRatBN7.2
mRatBN7.2X58,982,131 - 58,982,236 (+)MAPPERmRatBN7.2
Rnor_6.0X63,329,541 - 63,329,645NCBIRnor6.0
Rnor_6.01390,058,945 - 90,059,049NCBIRnor6.0
Rnor_5.01394,680,847 - 94,680,951UniSTSRnor5.0
Rnor_5.0X63,924,570 - 63,924,674UniSTSRnor5.0
RGSC_v3.4X81,615,398 - 81,615,502UniSTSRGSC3.4
RGSC_v3.41387,637,923 - 87,638,027UniSTSRGSC3.4
Celera1383,766,265 - 83,766,369UniSTS
CeleraX59,415,912 - 59,416,016UniSTS
Cytogenetic Map13q24UniSTS
Cytogenetic MapXq31UniSTS
Eef1g  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21384,138,098 - 84,138,492 (+)MAPPERmRatBN7.2
Rnor_6.01390,059,169 - 90,059,562NCBIRnor6.0
Rnor_5.01394,681,071 - 94,681,464UniSTSRnor5.0
RGSC_v3.41387,638,147 - 87,638,540UniSTSRGSC3.4
RGSC_v3.4375,296,563 - 75,296,965UniSTSRGSC3.4
Celera1383,766,489 - 83,766,882UniSTS
Celera376,125,167 - 76,125,547UniSTS
Cytogenetic Map3q24UniSTS
Cytogenetic Map1q43UniSTS
Cytogenetic Map13q24UniSTS


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 4 15 1
Low 3 13 27 18 4 18 1 1 13 9 10 1
Below cutoff 26 21 19 19 6 9 43 20 28 6

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038006   ⟹   ENSRNOP00000038176
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1384,136,899 - 84,154,105 (-)Ensembl
Rnor_6.0 Ensembl1390,058,127 - 90,074,952 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000088884   ⟹   ENSRNOP00000073407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1384,136,899 - 84,154,105 (-)Ensembl
Rnor_6.0 Ensembl1390,061,028 - 90,075,144 (-)Ensembl
RefSeq Acc Id: NM_001191550   ⟹   NP_001178479
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21384,137,057 - 84,153,884 (-)NCBI
Rnor_6.01390,058,127 - 90,074,952 (-)NCBI
Rnor_5.01394,678,628 - 94,696,989 (-)NCBI
Celera1383,765,447 - 83,782,293 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006250250   ⟹   XP_006250312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21384,135,656 - 84,154,140 (-)NCBI
Rnor_6.01390,056,726 - 90,075,159 (-)NCBI
Rnor_5.01394,678,628 - 94,696,989 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090954   ⟹   XP_038946882
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21384,139,678 - 84,154,528 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001178479 (Get FASTA)   NCBI Sequence Viewer  
  NP_001399756 (Get FASTA)   NCBI Sequence Viewer  
  XP_006250312 (Get FASTA)   NCBI Sequence Viewer  
  XP_038946882 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL94661 (Get FASTA)   NCBI Sequence Viewer  
  EDL94662 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001178479   ⟸   NM_001191550
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_006250312   ⟸   XM_006250250
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K5F6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000038176   ⟸   ENSRNOT00000038006
RefSeq Acc Id: ENSRNOP00000073407   ⟸   ENSRNOT00000088884
RefSeq Acc Id: XP_038946882   ⟸   XM_039090954
- Peptide Label: isoform X2
- UniProtKB: D4ABU3 (UniProtKB/TrEMBL)
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABU3-F1-model_v2 AlphaFold D4ABU3 1-342 view protein structure

Transcriptome

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

Promoters
RGD ID:13699013
Promoter ID:EPDNEW_R9538
Type:multiple initiation site
Name:Slamf7_1
Description:SLAM family member 7
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01390,075,007 - 90,075,067EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560190 AgrOrtholog
BioCyc Gene G2FUF-17352 BioCyc
Ensembl Genes ENSRNOG00000023209 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000038176 ENTREZGENE
  ENSRNOP00000038176.5 UniProtKB/TrEMBL
  ENSRNOP00000073407 ENTREZGENE
  ENSRNOP00000073407.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038006 ENTREZGENE
  ENSRNOT00000038006.6 UniProtKB/TrEMBL
  ENSRNOT00000088884 ENTREZGENE
  ENSRNOT00000088884.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
KEGG Report rno:364049 UniProtKB/TrEMBL
NCBI Gene 364049 ENTREZGENE
PhenoGen Slamf7 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2K5F6 ENTREZGENE, UniProtKB/TrEMBL
  D4ABU3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-28 Slamf7  SLAM family member 7  RGD1560190_predicted  similar to SLAM family member 7 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1560190_predicted  similar to SLAM family member 7 (predicted)  LOC364049  similar to SLAM family member 7  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC364049  similar to SLAM family member 7      Symbol and Name status set to provisional 70820 PROVISIONAL