Samd10 (sterile alpha motif domain containing 10) - Rat Genome Database

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Gene: Samd10 (sterile alpha motif domain containing 10) Rattus norvegicus
Analyze
Symbol: Samd10
Name: sterile alpha motif domain containing 10
RGD ID: 1563203
Description: Predicted to be involved in cell surface receptor protein tyrosine kinase signaling pathway. Predicted to be active in cytoplasmic side of plasma membrane. Orthologous to human SAMD10 (sterile alpha motif domain containing 10); INTERACTS WITH alpha-Zearalanol; bisphenol A; dibutyl phthalate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC499957; RGD1563203; similar to Sterile alpha motif domain containing 10; sterile alpha motif domain-containing protein 10
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83189,077,795 - 189,082,069 (-)NCBIGRCr8
mRatBN7.23168,700,280 - 168,704,427 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,080,186 - 173,083,590 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,039,280 - 182,042,684 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,701,923 - 178,705,336 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,091,467 - 177,095,599 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,800,930 - 180,805,061 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,734,454 - 170,737,867 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3163,883,197 - 163,886,610 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Samd10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83189,077,795 - 189,082,069 (-)NCBIGRCr8
mRatBN7.23168,700,280 - 168,704,427 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3173,080,186 - 173,083,590 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,039,280 - 182,042,684 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,701,923 - 178,705,336 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,091,467 - 177,095,599 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,800,930 - 180,805,061 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,734,454 - 170,737,867 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3163,883,197 - 163,886,610 (+)NCBICelera
Cytogenetic Map3q43NCBI
SAMD10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382063,974,116 - 63,980,144 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2063,974,116 - 63,980,008 (-)EnsemblGRCh38hg38GRCh38
GRCh372062,605,469 - 62,610,995 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362062,075,910 - 62,081,439 (-)NCBINCBI36Build 36hg18NCBI36
Build 342062,075,911 - 62,081,436NCBI
Celera2059,292,100 - 59,297,628 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2059,340,220 - 59,345,748 (-)NCBIHuRef
CHM1_12062,506,542 - 62,512,053 (-)NCBICHM1_1
T2T-CHM13v2.02065,793,877 - 65,799,906 (-)NCBIT2T-CHM13v2.0
Samd10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392181,237,008 - 181,241,227 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2181,237,011 - 181,241,005 (-)EnsemblGRCm39 Ensembl
GRCm382181,595,215 - 181,599,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,595,218 - 181,599,212 (-)EnsemblGRCm38mm10GRCm38
MGSCv372181,329,923 - 181,333,852 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362181,524,625 - 181,528,554 (-)NCBIMGSCv36mm8
Celera2185,676,815 - 185,680,744 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.67NCBI
Samd10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528281,932 - 284,386 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528279,481 - 284,386 (+)NCBIChiLan1.0ChiLan1.0
SAMD10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22169,793,418 - 69,799,071 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12069,785,431 - 69,791,076 (-)NCBINHGRI_mPanPan1
PanPan1.12061,892,527 - 61,897,863 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,892,527 - 61,897,863 (-)Ensemblpanpan1.1panPan2
SAMD10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,436,158 - 47,441,109 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2447,437,538 - 47,441,022 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,569,604 - 46,574,791 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02448,575,186 - 48,580,373 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2448,484,674 - 48,580,380 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12447,419,393 - 47,424,564 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02447,544,287 - 47,549,461 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02448,282,707 - 48,287,894 (-)NCBIUU_Cfam_GSD_1.0
Samd10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,715,822 - 195,720,349 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651411,167,305 - 11,173,877 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651411,169,167 - 11,173,956 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SAMD10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,809,504 - 62,813,991 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,809,504 - 62,813,993 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SAMD10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12260,273 - 266,808 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2261,551 - 265,400 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605047,791,166 - 47,796,793 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Samd10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474129,596,069 - 29,599,799 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474129,595,489 - 29,599,819 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Samd10
15 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:228
Count of miRNA genes:158
Interacting mature miRNAs:183
Transcripts:ENSRNOT00000029386
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat


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 3 66 25 25
Low 41 57 41 19 41 6 9 8 10 16 11 6
Below cutoff 2 2 2 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000029386   ⟹   ENSRNOP00000032091
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)Ensembl
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)Ensembl
RefSeq Acc Id: NM_001191967   ⟹   NP_001178896
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,078,513 - 189,081,926 (-)NCBI
mRatBN7.23168,700,998 - 168,704,412 (-)NCBI
Rnor_6.03177,092,185 - 177,095,598 (-)NCBI
Rnor_5.03180,800,930 - 180,805,061 (-)NCBI
Celera3163,883,197 - 163,886,610 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006235798   ⟹   XP_006235860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83189,077,795 - 189,082,069 (-)NCBI
mRatBN7.23168,700,280 - 168,704,427 (-)NCBI
Rnor_6.03177,091,467 - 177,095,599 (-)NCBI
Rnor_5.03180,800,930 - 180,805,061 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001178896 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235860 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88696 (Get FASTA)   NCBI Sequence Viewer  
  EDL88697 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000032091.7
Reference Protein Sequences
RefSeq Acc Id: NP_001178896   ⟸   NM_001191967
- UniProtKB: A6KLY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235860   ⟸   XM_006235798
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000032091   ⟸   ENSRNOT00000029386
Protein Domains
SAM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M2I9-F1-model_v2 AlphaFold F1M2I9 1-201 view protein structure

Transcriptome

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

Promoters
RGD ID:13692761
Promoter ID:EPDNEW_R3284
Type:initiation region
Name:Samd10_1
Description:sterile alpha motif domain containing 10
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_6.03177,095,538 - 177,095,598EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563203 AgrOrtholog
BioCyc Gene G2FUF-46271 BioCyc
Ensembl Genes ENSRNOG00000036719 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000029386.7 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro Aveugle-like_SAM_dom UniProtKB/TrEMBL
  SAM UniProtKB/TrEMBL
  SAM_type UniProtKB/TrEMBL
KEGG Report rno:499957 UniProtKB/TrEMBL
NCBI Gene 499957 ENTREZGENE
PANTHER STERILE ALPHA MOTIF DOMAIN CONTAINING PROTEIN 10 UniProtKB/TrEMBL
  STERILE ALPHA MOTIF DOMAIN-CONTAINING PROTEIN 10 UniProtKB/TrEMBL
Pfam SAM_2 UniProtKB/TrEMBL
PhenoGen Samd10 PhenoGen
PROSITE SAM_DOMAIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000036719 RatGTEx
SMART SAM UniProtKB/TrEMBL
Superfamily-SCOP SAM_homology UniProtKB/TrEMBL
UniProt A6KLY8 ENTREZGENE, UniProtKB/TrEMBL
  F1M2I9_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Samd10  sterile alpha motif domain containing 10  RGD1563203_predicted  similar to Sterile alpha motif domain containing 10 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1563203_predicted  similar to Sterile alpha motif domain containing 10 (predicted)  LOC499957  similar to Sterile alpha motif domain containing 10  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499957  similar to Sterile alpha motif domain containing 10      Symbol and Name status set to provisional 70820 PROVISIONAL