Scml1 (Scm polycomb group protein like 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: Scml1 (Scm polycomb group protein like 1) Rattus norvegicus
Analyze
Symbol: Scml1
Name: Scm polycomb group protein like 1
RGD ID: 7723901
Description: Predicted to be located in female germ cell nucleus and male germ cell nucleus. Orthologous to human SCML1 (Scm polycomb group protein like 1); INTERACTS WITH (-)-epigallocatechin 3-gallate (ortholog); 2-hydroxypropanoic acid (ortholog); 3-isobutyl-1-methyl-7H-xanthine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AABR07037878.2; LOC102550809; pheromone-regulated protein PRM7-like; sex comb on midleg-like 1; sex comb on midleg-like 1 (Drosophila); sex comb on midleg-like protein 1
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
GRCr8X36,526,068 - 36,543,336 (+)NCBIGRCr8
mRatBN7.2X32,893,100 - 32,912,686 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX32,894,327 - 32,911,366 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X34,676,728 - 34,694,251 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX34,687,969 - 34,694,321 (+)NCBIRnor6.0rn6Rnor6.0
Rnor_5.0X35,020,004 - 35,036,805 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX33,184,333 - 33,201,861 (+)NCBICelera
Cytogenetic MapXq14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Scml1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X36,526,068 - 36,543,336 (+)NCBIGRCr8
mRatBN7.2X32,893,100 - 32,912,686 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX32,894,327 - 32,911,366 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X34,676,728 - 34,694,251 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX34,687,969 - 34,694,321 (+)NCBIRnor6.0rn6Rnor6.0
Rnor_5.0X35,020,004 - 35,036,805 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX33,184,333 - 33,201,861 (+)NCBICelera
Cytogenetic MapXq14NCBI
SCML1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X17,737,128 - 17,754,985 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX17,737,449 - 17,754,988 (+)EnsemblGRCh38hg38GRCh38
GRCh37X17,755,613 - 17,773,105 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X17,665,513 - 17,683,026 (+)NCBINCBI36Build 36hg18NCBI36
Build 34X17,515,248 - 17,532,761NCBI
CeleraX21,874,910 - 21,892,423 (+)NCBICelera
Cytogenetic MapXp22.13NCBI
HuRefX15,514,144 - 15,531,658 (+)NCBIHuRef
CHM1_1X17,785,980 - 17,803,493 (+)NCBICHM1_1
T2T-CHM13v2.0X17,319,668 - 17,337,595 (+)NCBIT2T-CHM13v2.0
Scml1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X160,597,689 - 160,615,118 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX160,598,170 - 160,608,319 (-)EnsemblGRCm39 Ensembl
GRCm38X161,814,693 - 161,832,122 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX161,814,690 - 161,832,176 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X158,253,103 - 158,258,105 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X157,159,276 - 157,164,278 (-)NCBIMGSCv36mm8
CeleraX145,048,291 - 145,054,602 (-)NCBICelera
Cytogenetic MapXF4NCBI
cM MapX74.15NCBI
Scml1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955519578,343 - 591,299 (-)NCBIChiLan1.0ChiLan1.0
SCML1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X19,535,428 - 19,553,089 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X19,538,820 - 19,556,481 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X10,360,555 - 10,378,123 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X17,729,625 - 17,747,182 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX17,736,355 - 17,745,591 (+)Ensemblpanpan1.1panPan2
SCML1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X13,836,054 - 13,850,151 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX13,688,259 - 13,702,043 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X13,799,865 - 13,813,625 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX13,799,872 - 13,813,615 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X13,866,405 - 13,880,177 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X13,852,728 - 13,866,486 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X13,922,352 - 13,936,126 (+)NCBIUU_Cfam_GSD_1.0
Scml1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X6,972,063 - 6,990,802 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049364706,978,142 - 6,989,145 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SCML1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1X14,210,164 - 14,222,053 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X15,306,832 - 15,318,727 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SCML1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X16,193,787 - 16,208,945 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605618,054,381 - 18,071,810 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Scml1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248292,521,983 - 2,534,309 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Scml1
49 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
71116Niddm16Non-insulin dependent diabetes mellitus QTL 167.81blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X1529780260297802Rat
1598873Memor2Memory QTL 22.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)X2099094741052531Rat
2290375Gluco34Glucose level QTL 342.75blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X2099094741203591Rat


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000084241   ⟹   ENSRNOP00000080927
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX32,894,327 - 32,911,366 (+)Ensembl
RefSeq Acc Id: NM_001427177   ⟹   NP_001414106
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X36,526,068 - 36,543,336 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001414106 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000080927.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000080927   ⟸   ENSRNOT00000084241
RefSeq Acc Id: NP_001414106   ⟸   NM_001427177
- UniProtKB: A0A8I6G5A9 (UniProtKB/TrEMBL)
Protein Domains
SAM

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:7723901 AgrOrtholog
BioCyc Gene G2FUF-2517 BioCyc
Ensembl Genes ENSRNOG00000052694 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084241.2 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro SAM UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/TrEMBL
KEGG Report rno:102550809 UniProtKB/TrEMBL
NCBI Gene LOC102550809 ENTREZGENE
PANTHER POLYCOMB GROUP PROTEIN UniProtKB/TrEMBL
  SEX COMB ON MIDLEG-LIKE PROTEIN 1 UniProtKB/TrEMBL
Pfam SAM_1 UniProtKB/TrEMBL
PhenoGen Scml1 PhenoGen
RatGTEx ENSRNOG00000052694 RatGTEx
SMART SAM UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/TrEMBL
UniProt A0A8I6G5A9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Scml1  Scm polycomb group protein like 1  AABR07037878.2    Data merged from RGD:15007343 737654 PROVISIONAL
2019-11-08 AABR07037878.2        Symbol and Name status set to provisional 45752 PROVISIONAL
2017-07-31 Scml1  Scm polycomb group protein like 1  Scml1  sex comb on midleg-like 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-12-18 Scml1  sex comb on midleg-like 1 (Drosophila)  LOC102550809  pheromone-regulated protein PRM7-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-12-18 LOC102550809  pheromone-regulated protein PRM7-like      Symbol and Name status set to provisional 70820 PROVISIONAL