Siglec10 (sialic acid binding Ig-like lectin 10) - Rat Genome Database

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Gene: Siglec10 (sialic acid binding Ig-like lectin 10) Rattus norvegicus
Analyze
Symbol: Siglec10
Name: sialic acid binding Ig-like lectin 10
RGD ID: 1307441
Description: Predicted to enable SH2 domain binding activity; phosphatase binding activity; and sialic acid binding activity. Predicted to be involved in cell adhesion and negative regulation of inflammatory response to wounding. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Predicted to be located in membrane. Predicted to be active in plasma membrane. Orthologous to several human genes including SIGLEC10 (sialic acid binding Ig like lectin 10); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC292844; sialic acid binding Ig-like lectin G; sialic acid-binding Ig-like lectin 10; Siglecg
RGD Orthologs
Human
Bonobo
Squirrel
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81102,953,894 - 102,962,964 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1102,953,918 - 102,962,964 (+)EnsemblGRCr8
mRatBN7.2193,817,301 - 93,826,376 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl193,817,335 - 93,825,931 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx199,202,682 - 99,211,728 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01107,675,352 - 107,684,398 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01100,967,934 - 100,976,980 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0198,512,663 - 98,521,736 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl198,512,625 - 98,521,706 (-)Ensemblrn6Rnor6.0
Rnor_5.0199,589,468 - 99,598,533 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4193,785,306 - 93,793,906 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera188,094,664 - 88,103,260 (+)NCBICelera
RGSC_v3.1193,863,714 - 93,872,462 (+)NCBI
Cytogenetic Map1q22NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11284738   PMID:12163025   PMID:12477932   PMID:19264983   PMID:20200274   PMID:24029230  


Genomics

Comparative Map Data
Siglec10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81102,953,894 - 102,962,964 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1102,953,918 - 102,962,964 (+)EnsemblGRCr8
mRatBN7.2193,817,301 - 93,826,376 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl193,817,335 - 93,825,931 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx199,202,682 - 99,211,728 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01107,675,352 - 107,684,398 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01100,967,934 - 100,976,980 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0198,512,663 - 98,521,736 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl198,512,625 - 98,521,706 (-)Ensemblrn6Rnor6.0
Rnor_5.0199,589,468 - 99,598,533 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4193,785,306 - 93,793,906 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera188,094,664 - 88,103,260 (+)NCBICelera
RGSC_v3.1193,863,714 - 93,872,462 (+)NCBI
Cytogenetic Map1q22NCBI
SIGLEC10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381951,410,020 - 51,417,642 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1951,410,020 - 51,417,803 (-)Ensemblhg38GRCh38
GRCh371951,913,274 - 51,920,896 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361956,605,087 - 56,613,263 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341956,605,087 - 56,612,764NCBI
Celera1948,964,319 - 48,972,101 (-)NCBICelera
Cytogenetic Map19q13.41NCBI
HuRef1948,245,214 - 48,252,996 (-)NCBIHuRef
CHM1_11951,915,214 - 51,922,996 (-)NCBICHM1_1
T2T-CHM13v2.01954,498,651 - 54,506,273 (-)NCBIT2T-CHM13v2.0
SIGLEC10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22057,447,388 - 57,455,297 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11959,368,839 - 59,376,748 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01948,345,150 - 48,352,919 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11957,230,104 - 57,238,316 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1957,230,106 - 57,238,316 (-)EnsemblpanPan2panpan1.1
Siglec10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934923,092,369 - 23,098,014 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493737864,712 - 72,298 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SIGLEC10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1644,328,655 - 44,347,902 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl644,329,759 - 44,336,295 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366607324,378,127 - 24,397,502 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Siglec10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248323,473,587 - 3,479,507 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Siglec10
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12156,060,871 - 156,069,016 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Siglec10
230 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:43
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000015941
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)187889942132889942Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)139728272132889942Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151941022208479811Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1102780511182384005Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)151940904168768703Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)192963855109494029Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1101228864146228864Rat
1331800Scl25Serum cholesterol level QTL 253.013blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)187785026142582336Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)183019780128019780Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)166404680111404680Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134184556172281316Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)166009857160501508Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134565911208798288Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)193903998191260518Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)166400974132889942Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)184107164115183752Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)191302413136302413Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)151511344153680016Rat
724567Tcas6Tongue tumor susceptibility QTL 66.85tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)1102359314153680016Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)199645382182701046Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)199645382221502378Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)186622262131622262Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)158769992103769992Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)166077886111077886Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)198879955208479939Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of, or within a discrete space in an open field apparatus (CMO:0001514)192683681137683681Rat
152025249Scl82Serum cholesterol level QTL 824.77blood cholesterol amount (VT:0000180)152891222109116986Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)186993904131993904Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)187558587132558587Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)192683681137683681Rat
737977Bp160Blood pressure QTL 1600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)197582336142582336Rat
2293142Bp314Blood pressure QTL 314arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1101594089146594089Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1100345976145345976Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)196717367160111531Rat

Markers in Region
RH132832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2193,825,701 - 93,825,908 (-)MAPPERmRatBN7.2
Rnor_6.0198,513,133 - 98,513,339NCBIRnor6.0
Rnor_5.0199,589,938 - 99,590,144UniSTSRnor5.0
RGSC_v3.4193,793,677 - 93,793,883UniSTSRGSC3.4
Celera188,103,031 - 88,103,237UniSTS
RH 3.4 Map1884.2UniSTS
Cytogenetic Map1q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
15 12 43 103 86 85 54 92 54 6 309 168 11 75 64 84 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000015941   ⟹   ENSRNOP00000015941
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl193,817,335 - 93,825,931 (+)Ensembl
Rnor_6.0 Ensembl198,513,116 - 98,521,706 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000081922   ⟹   ENSRNOP00000069639
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1102,953,918 - 102,962,964 (+)Ensembl
mRatBN7.2 Ensembl193,817,335 - 93,825,931 (+)Ensembl
Rnor_6.0 Ensembl198,512,625 - 98,521,551 (-)Ensembl
RefSeq Acc Id: NM_001401363   ⟹   NP_001388292
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81102,953,918 - 102,962,964 (+)NCBI
mRatBN7.2193,817,327 - 93,826,373 (+)NCBI
RefSeq Acc Id: XM_039104625   ⟹   XP_038960553
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81102,956,509 - 102,962,964 (+)NCBI
mRatBN7.2193,819,913 - 93,826,376 (+)NCBI
RefSeq Acc Id: XM_063283803   ⟹   XP_063139873
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81102,953,894 - 102,957,209 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001388292 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960553 (Get FASTA)   NCBI Sequence Viewer  
  XP_063139873 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI68854 (Get FASTA)   NCBI Sequence Viewer  
  EDM07561 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069639
  ENSRNOP00000069639.1
Ensembl Acc Id: ENSRNOP00000069639   ⟸   ENSRNOT00000081922
Ensembl Acc Id: ENSRNOP00000015941   ⟸   ENSRNOT00000015941
RefSeq Acc Id: XP_038960553   ⟸   XM_039104625
- Peptide Label: isoform X2
- UniProtKB: D3ZF71 (UniProtKB/TrEMBL),   A6JAH3 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001388292   ⟸   NM_001401363
- Peptide Label: precursor
- UniProtKB: A0A0G2JVW0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063139873   ⟸   XM_063283803
- Peptide Label: isoform X1
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JVW0-F1-model_v2 AlphaFold A0A0G2JVW0 1-688 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307441 AgrOrtholog
BioCyc Gene G2FUF-59858 BioCyc
Ensembl Genes ENSRNOG00000037339 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081922 ENTREZGENE
  ENSRNOT00000081922.3 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
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  SIGLEC UniProtKB/TrEMBL
NCBI Gene 292844 ENTREZGENE
PANTHER SIALIC ACID BINDING IMMUNOGLOBULIN-LIKE LECTIN UniProtKB/TrEMBL
  SIALIC ACID-BINDING IG-LIKE LECTIN 10 UniProtKB/TrEMBL
Pfam I-set UniProtKB/TrEMBL
  V-set UniProtKB/TrEMBL
PhenoGen Siglec10 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000037339 RatGTEx
SMART IGc2 UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A0A0G2JVW0 ENTREZGENE, UniProtKB/TrEMBL
  A6JAH3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZF71 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-12-16 Siglec10  sialic acid binding Ig-like lectin 10  Siglecg  sialic acid binding Ig-like lectin G  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Siglecg  sialic acid binding Ig-like lectin G  Siglec10_predicted  sialic acid binding Ig-like lectin 10 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Siglec10_predicted  sialic acid binding Ig-like lectin 10 (predicted)      Symbol and Name status set to approved 70820 APPROVED