SLAMF1 (signaling lymphocytic activation molecule family member 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: SLAMF1 (signaling lymphocytic activation molecule family member 1) Chlorocebus sabaeus
Analyze
Symbol: SLAMF1
Name: signaling lymphocytic activation molecule family member 1
RGD ID: 18368662
Description: ENCODES a protein that exhibits cell adhesion mediator activity (ortholog); identical protein binding (ortholog); SH2 domain binding (ortholog); INVOLVED IN leukocyte chemotaxis involved in inflammatory response (ortholog); myeloid dendritic cell activation involved in immune response (ortholog); natural killer cell differentiation (ortholog); ASSOCIATED WITH autoimmune interstitial lung, joint, and kidney disease (ortholog); gastrointestinal stromal tumor (ortholog); parathyroid carcinoma (ortholog); FOUND IN phagocytic vesicle (ortholog); plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: signaling lymphocytic activation molecule
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1203,282,862 - 3,320,943 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl203,282,774 - 3,322,926 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660382,326,973 - 2,367,237 (+)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

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
SLAMF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1203,282,862 - 3,320,943 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl203,282,774 - 3,322,926 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660382,326,973 - 2,367,237 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SLAMF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381160,608,106 - 160,647,044 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1160,608,106 - 160,647,044 (-)EnsemblGRCh38hg38GRCh38
GRCh371160,577,896 - 160,616,834 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361158,846,513 - 158,883,493 (-)NCBINCBI36Build 36hg18NCBI36
Build 341157,392,961 - 157,429,942NCBI
Celera1133,648,634 - 133,685,810 (-)NCBICelera
Cytogenetic Map1q23.3NCBI
HuRef1131,936,108 - 131,973,275 (-)NCBIHuRef
CHM1_11161,975,242 - 162,012,420 (-)NCBICHM1_1
T2T-CHM13v2.01159,745,198 - 159,784,140 (-)NCBIT2T-CHM13v2.0
Slamf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391171,594,700 - 171,628,752 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1171,594,695 - 171,628,752 (+)EnsemblGRCm39 Ensembl
GRCm381171,767,131 - 171,801,184 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1171,767,127 - 171,801,184 (+)EnsemblGRCm38mm10GRCm38
MGSCv371173,697,263 - 173,731,315 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361173,603,832 - 173,636,936 (+)NCBIMGSCv36mm8
Celera1174,623,305 - 174,657,749 (+)NCBICelera
Cytogenetic Map1H3NCBI
cM Map179.54NCBI
Slamf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81386,802,708 - 86,837,890 (+)NCBIGRCr8
mRatBN7.21384,270,316 - 84,305,497 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1384,270,316 - 84,305,497 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1386,773,651 - 86,808,837 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01388,173,933 - 88,209,121 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01385,359,002 - 85,394,197 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01390,184,545 - 90,219,170 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1390,184,569 - 90,219,217 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.013101,446,883 - 101,481,363 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41387,769,569 - 87,804,963 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1383,882,850 - 83,917,969 (+)NCBICelera
Cytogenetic Map13q24NCBI
Slamf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546812,334,307 - 12,370,334 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546812,336,744 - 12,383,917 (-)NCBIChiLan1.0ChiLan1.0
SLAMF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2189,203,016 - 89,242,333 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1188,943,220 - 88,982,359 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01135,963,748 - 136,002,982 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11139,888,596 - 139,925,461 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1139,888,772 - 139,925,461 (-)Ensemblpanpan1.1panPan2
SLAMF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13821,653,801 - 21,685,408 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3821,653,487 - 21,685,408 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3821,726,592 - 21,758,187 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03821,770,801 - 21,804,397 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3821,770,907 - 21,802,603 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13821,658,262 - 21,689,651 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03822,072,127 - 22,103,678 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03822,481,891 - 22,513,458 (+)NCBIUU_Cfam_GSD_1.0
Slamf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050586,661,580 - 6,698,569 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493674055,941 - 92,100 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493674055,941 - 92,100 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SLAMF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl489,870,539 - 89,908,231 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1489,870,359 - 89,907,114 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2497,762,763 - 97,799,248 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Slamf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624794627,906 - 661,257 (+)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 2
Low 18
Below cutoff 34 27

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000000608   ⟹   ENSCSAP00000015454
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl203,282,774 - 3,322,926 (+)Ensembl
RefSeq Acc Id: XM_007976481   ⟹   XP_007974672
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1203,282,862 - 3,320,943 (+)NCBI
Vero_WHO_p1.0NW_0236660382,326,973 - 2,367,237 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007974672 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000015454
  ENSCSAP00000015454.1
Reference Protein Sequences
RefSeq Acc Id: XP_007974672   ⟸   XM_007976481
- UniProtKB: A0A0D9S3L5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000015454   ⟸   ENSCSAT00000000608


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000002591 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000000608.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Sig_lymph_act_molc_N UniProtKB/TrEMBL
KEGG Report csab:103223716 UniProtKB/TrEMBL
NCBI Gene SLAMF1 ENTREZGENE
PANTHER SIGNALING LYMPHOCYTIC ACTIVATION MOLECULE UniProtKB/TrEMBL
  SIGNALING LYMPHOCYTIC ACTIVATION MOLECULE UniProtKB/TrEMBL
Pfam SLAM UniProtKB/TrEMBL
PROSITE IG_LIKE UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A0D9S3L5 ENTREZGENE, UniProtKB/TrEMBL