Smlr1 (small leucine-rich protein 1) - Rat Genome Database

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Gene: Smlr1 (small leucine-rich protein 1) Rattus norvegicus
Analyze
Symbol: Smlr1
Name: small leucine-rich protein 1
RGD ID: 1586664
Description: Orthologous to human SMLR1 (small leucine rich protein 1); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC686032; LOC686032; uncharacterized protein LOC686032
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8121,656,720 - 21,678,232 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl121,656,712 - 21,678,231 (+)EnsemblGRCr8
mRatBN7.2119,837,390 - 19,858,906 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx119,614,118 - 19,635,631 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0125,614,091 - 25,628,680 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0119,813,989 - 19,835,503 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0120,856,187 - 20,877,716 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl120,856,187 - 20,877,716 (+)Ensemblrn6Rnor6.0
Rnor_5.0122,337,121 - 22,358,779 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4120,302,433 - 20,339,166 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera118,316,279 - 18,337,152 (-)NCBICelera
Cytogenetic Map1p12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548  


Genomics

Comparative Map Data
Smlr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8121,656,720 - 21,678,232 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl121,656,712 - 21,678,231 (+)EnsemblGRCr8
mRatBN7.2119,837,390 - 19,858,906 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx119,614,118 - 19,635,631 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0125,614,091 - 25,628,680 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0119,813,989 - 19,835,503 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0120,856,187 - 20,877,716 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl120,856,187 - 20,877,716 (+)Ensemblrn6Rnor6.0
Rnor_5.0122,337,121 - 22,358,779 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4120,302,433 - 20,339,166 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera118,316,279 - 18,337,152 (-)NCBICelera
Cytogenetic Map1p12NCBI
SMLR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386130,827,406 - 130,837,135 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6130,827,406 - 130,837,135 (+)Ensemblhg38GRCh38
GRCh376131,148,546 - 131,158,275 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera6131,894,658 - 131,904,609 (+)NCBICelera
Cytogenetic Map6q23.1NCBI
HuRef6128,729,834 - 128,739,564 (+)NCBIHuRef
CHM1_16131,411,603 - 131,421,333 (+)NCBICHM1_1
T2T-CHM13v2.06132,022,469 - 132,032,200 (+)NCBIT2T-CHM13v2.0
Smlr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391025,403,841 - 25,412,170 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1025,403,841 - 25,412,165 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381025,527,943 - 25,536,272 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1025,527,943 - 25,536,267 (-)Ensemblmm10GRCm38
MGSCv371025,247,749 - 25,256,078 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361025,247,749 - 25,256,078 (-)NCBIMGSCv36mm8
Celera1026,464,631 - 26,473,154 (-)NCBICelera
Cytogenetic Map10A4NCBI
cM Map1012.26NCBI
Smlr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495543611,639,564 - 11,647,131 (+)NCBIChiLan1.0ChiLan1.0
SMLR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25150,834,837 - 150,844,609 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16148,741,601 - 148,751,371 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06128,628,887 - 128,636,684 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16132,735,376 - 132,743,272 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6132,735,376 - 132,743,272 (+)EnsemblpanPan2panpan1.1
Smlr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946119,354,391 - 119,368,017 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936790595,284 - 602,433 (-)EnsemblSpeTri2.0 Ensembl
SMLR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl132,635,744 - 32,645,093 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1132,638,169 - 32,708,198 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2136,034,943 - 36,104,959 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMLR1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11342,724,017 - 42,734,873 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1342,723,703 - 42,733,959 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604014,862,377 - 14,870,531 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smlr1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12211,581,677 - 211,595,908 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Smlr1
270 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:29
Count of miRNA genes:23
Interacting mature miRNAs:27
Transcripts:ENSRNOT00000071726
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
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1529322934184556Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1354647Despr8Despair related QTL 80.0000341locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1126564886Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)11037949255379492Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1529322934184556Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)11731537851816258Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1126564886Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11282049457820494Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)1134184556Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12065642065656420Rat
1300170Rf6Renal function QTL 63.14renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)1128483164Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12050832665508326Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11168446456684464Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1529322934184556Rat

Markers in Region
AU047178  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8121,676,887 - 21,677,037 (+)Marker Load Pipeline
mRatBN7.2119,857,559 - 19,857,711 (+)MAPPERmRatBN7.2
Rnor_6.0120,876,372 - 20,876,521NCBIRnor6.0
Rnor_5.0122,357,435 - 22,357,584UniSTSRnor5.0
RGSC_v3.4120,337,821 - 20,337,970UniSTSRGSC3.4
Celera118,317,474 - 18,317,623UniSTS
Cytogenetic Map1p12UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 8 25 43 90 89 59 27 59 6 224 71 27 77 52 30

Sequence


Ensembl Acc Id: ENSRNOT00000071726   ⟹   ENSRNOP00000065596
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl120,856,187 - 20,877,716 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000163313   ⟹   ENSRNOP00000104294
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl121,656,712 - 21,678,231 (+)Ensembl
RefSeq Acc Id: NM_001195606   ⟹   NP_001182535
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8121,656,720 - 21,678,232 (+)NCBI
mRatBN7.2119,837,390 - 19,858,906 (+)NCBI
Rnor_6.0120,856,187 - 20,877,716 (+)NCBI
Rnor_5.0122,337,121 - 22,358,779 (+)NCBI
Celera118,316,279 - 18,337,152 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001182535 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL82924 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000104294
  ENSRNOP00000104294.1
RefSeq Acc Id: NP_001182535   ⟸   NM_001195606
- UniProtKB: A6KU07 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000065596   ⟸   ENSRNOT00000071726
Ensembl Acc Id: ENSRNOP00000104294   ⟸   ENSRNOT00000163313

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R807-F1-model_v2 AlphaFold M0R807 1-68 view protein structure

Transcriptome

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

Promoters
RGD ID:13689523
Promoter ID:EPDNEW_R47
Type:initiation region
Name:Smlr1_1
Description:small leucine-rich protein 1
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_6.0120,856,170 - 20,856,230EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586664 AgrOrtholog
BioCyc Gene G2FUF-62138 BioCyc
Ensembl Genes ENSRNOG00000047821 Ensembl
  ENSRNOG00000077441 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000163313 ENTREZGENE
  ENSRNOT00000163313.1 UniProtKB/TrEMBL
KEGG Report rno:686032 UniProtKB/TrEMBL
NCBI Gene 686032 ENTREZGENE
PhenoGen Smlr1 PhenoGen
RatGTEx ENSRNOG00000047821 RatGTEx
  ENSRNOG00000077441 RatGTEx
UniProt A0ABK0LHG1_RAT UniProtKB/TrEMBL
  A6KU07 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-01-22 Smlr1  small leucine-rich protein 1  LOC686032  hypothetical protein LOC686032  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC686032  hypothetical protein LOC686032      Symbol and Name status set to provisional 70820 PROVISIONAL