SAMD3 (sterile alpha motif domain containing 3) - Rat Genome Database

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Gene: SAMD3 (sterile alpha motif domain containing 3) Chlorocebus sabaeus
Analyze
Symbol: SAMD3
Name: sterile alpha motif domain containing 3
RGD ID: 18523005
Description:
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sterile alpha motif domain-containing protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11343,352,606 - 43,425,843 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1343,359,665 - 43,425,638 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604015,496,542 - 15,562,576 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
SAMD3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11343,352,606 - 43,425,843 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1343,359,665 - 43,425,638 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604015,496,542 - 15,562,576 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
SAMD3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386130,142,752 - 130,365,868 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6130,144,315 - 130,365,425 (-)EnsemblGRCh38hg38GRCh38
GRCh376130,465,460 - 130,687,013 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366130,507,153 - 130,585,792 (-)NCBINCBI36Build 36hg18NCBI36
Build 346130,545,826 - 130,578,128NCBI
Celera6131,211,871 - 131,290,516 (-)NCBICelera
Cytogenetic Map6q23.1NCBI
HuRef6128,046,422 - 128,267,947 (-)NCBIHuRef
CHM1_16130,728,763 - 130,949,633 (-)NCBICHM1_1
T2T-CHM13v2.06131,337,465 - 131,560,651 (-)NCBIT2T-CHM13v2.0
Samd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391026,105,465 - 26,148,814 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1026,105,605 - 26,148,070 (+)EnsemblGRCm39 Ensembl
GRCm381026,229,616 - 26,272,916 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1026,229,707 - 26,272,172 (+)EnsemblGRCm38mm10GRCm38
MGSCv371025,949,513 - 25,991,978 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361025,919,123 - 25,950,220 (+)NCBIMGSCv36mm8
Celera1027,147,252 - 27,190,600 (+)NCBICelera
Cytogenetic Map10A4NCBI
cM Map1013.57NCBI
Samd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8120,920,129 - 20,967,595 (-)NCBIGRCr8
mRatBN7.2119,100,767 - 19,148,241 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl119,103,036 - 19,148,192 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx118,877,458 - 18,924,927 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0124,877,902 - 24,925,353 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0119,077,309 - 19,124,785 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0120,111,548 - 20,155,960 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl120,125,966 - 20,155,960 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0121,598,897 - 21,643,309 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4119,547,850 - 19,606,546 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera117,494,740 - 17,539,252 (-)NCBICelera
Cytogenetic Map1p12NCBI
Samd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543611,017,462 - 11,073,937 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543611,017,336 - 11,074,020 (-)NCBIChiLan1.0ChiLan1.0
SAMD3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25150,147,017 - 150,339,198 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16148,053,804 - 148,132,247 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06127,941,052 - 128,019,570 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16132,048,638 - 132,126,440 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6132,048,638 - 132,126,440 (-)Ensemblpanpan1.1panPan2
SAMD3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1168,658,406 - 68,698,638 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl168,658,460 - 68,695,776 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha169,409,516 - 69,446,898 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0168,874,655 - 68,912,414 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl168,874,849 - 68,912,399 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1168,796,251 - 68,833,917 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0168,577,575 - 68,614,898 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0169,223,731 - 69,261,543 (-)NCBIUU_Cfam_GSD_1.0
Samd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946118,752,892 - 118,800,406 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367901,162,658 - 1,209,417 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367901,162,596 - 1,209,603 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SAMD3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl133,146,531 - 33,195,550 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1133,148,188 - 33,195,582 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2136,583,257 - 36,629,668 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Samd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247534,418,890 - 4,468,280 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247534,418,751 - 4,468,546 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 3
Low 22 17 26
Below cutoff 14 31

Sequence


RefSeq Acc Id: ENSCSAT00000014691   ⟹   ENSCSAP00000012655
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1343,359,665 - 43,425,638 (+)Ensembl
RefSeq Acc Id: XM_008007077   ⟹   XP_008005268
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11343,359,889 - 43,425,843 (+)NCBI
Vero_WHO_p1.0NW_02366604015,496,542 - 15,562,576 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008007078   ⟹   XP_008005269
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11343,359,889 - 43,425,843 (+)NCBI
Vero_WHO_p1.0NW_02366604015,496,542 - 15,562,576 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038000921   ⟹   XP_037856849
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366604015,496,542 - 15,562,576 (+)NCBI
Protein Sequences
Protein RefSeqs XP_008005268 (Get FASTA)   NCBI Sequence Viewer  
  XP_008005269 (Get FASTA)   NCBI Sequence Viewer  
  XP_037856849 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000012655.1
RefSeq Acc Id: XP_008005268   ⟸   XM_008007077
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RVL6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008005269   ⟸   XM_008007078
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RVL6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000012655   ⟸   ENSCSAT00000014691
RefSeq Acc Id: XP_037856849   ⟸   XM_038000921
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RVL6 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000016612 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000014691.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
InterPro SAM UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/TrEMBL
  SAMD3 UniProtKB/TrEMBL
  SAMD3_SAM UniProtKB/TrEMBL
NCBI Gene SAMD3 ENTREZGENE
PANTHER PTHR47302 UniProtKB/TrEMBL
  STERILE ALPHA MOTIF DOMAIN-CONTAINING PROTEIN 3 UniProtKB/TrEMBL
Pfam SAM_1 UniProtKB/TrEMBL
PROSITE SAM_DOMAIN UniProtKB/TrEMBL
SMART SAM UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/TrEMBL
UniProt A0A0D9RVL6 ENTREZGENE, UniProtKB/TrEMBL