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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83189,077,795 - 189,082,069 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3189,078,513 - 189,082,582 (-)EnsemblGRCr8
mRatBN7.23168,700,280 - 168,704,427 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3173,080,186 - 173,083,590 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,039,280 - 182,042,684 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,701,923 - 178,705,336 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,091,467 - 177,095,599 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)Ensemblrn6Rnor6.0
Rnor_5.03180,800,930 - 180,805,061 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43170,734,454 - 170,737,867 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera3163,883,197 - 163,886,610 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse:




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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl3189,078,513 - 189,082,582 (-)EnsemblGRCr8
mRatBN7.23168,700,280 - 168,704,427 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx3173,080,186 - 173,083,590 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03182,039,280 - 182,042,684 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,701,923 - 178,705,336 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.03177,091,467 - 177,095,599 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)Ensemblrn6Rnor6.0
Rnor_5.03180,800,930 - 180,805,061 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.43170,734,454 - 170,737,867 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
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 (-)Ensemblhg38GRCh38
GRCh372062,605,469 - 62,610,995 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362062,075,910 - 62,081,439 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm382181,595,215 - 181,599,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,595,218 - 181,599,212 (-)Ensemblmm10GRCm38
MGSCv372181,329,923 - 181,333,852 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (+)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2446,569,604 - 46,574,791 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02448,575,186 - 48,580,373 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (-)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474129,595,489 - 29,599,819 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Samd10
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v15158,684,656 - 158,689,009 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3152055202189428310Rat
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)3145335553189428310Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3151075912189428310Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3161492708189428310Rat
1582256Insul9Insulin level QTL 94.40.0016blood insulin amount (VT:0001560)absolute change in serum insulin level (CMO:0002038)3155759447189428310Rat
1582248Insul7Insulin level QTL 73.90.0041blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3151075912189428310Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3181611379189428310Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3166376089189428310Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3151075912189428310Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3144575244189428310Rat
1582213Insul6Insulin level QTL 63.70.0009blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)3155759447189428310Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3166376089189428310Rat


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
16 12 67 162 91 90 59 88 59 6 352 188 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000029386   ⟹   ENSRNOP00000032091
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3189,078,513 - 189,082,582 (-)Ensembl
mRatBN7.2 Ensembl3168,700,284 - 168,705,248 (-)Ensembl
Rnor_6.0 Ensembl3177,091,457 - 177,095,597 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000163761   ⟹   ENSRNOP00000102250
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl3189,078,513 - 189,081,055 (-)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
  ENSRNOP00000102250
  ENSRNOP00000102250.1
RefSeq Acc Id: NP_001178896   ⟸   NM_001191967
- UniProtKB: A6KLY8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235860   ⟸   XM_006235798
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000032091   ⟸   ENSRNOT00000029386
Ensembl Acc Id: ENSRNOP00000102250   ⟸   ENSRNOT00000163761
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, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000029386.8 UniProtKB/TrEMBL
  ENSRNOT00000163761 ENTREZGENE
  ENSRNOT00000163761.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro Aveugle-like_SAM_dom UniProtKB/TrEMBL
  SAM UniProtKB/TrEMBL
  SAM_domain-containing_protein 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 A0ABK0LCE6_RAT UniProtKB/TrEMBL
  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