Samd8 (sterile alpha motif domain containing 8) - Rat Genome Database

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Gene: Samd8 (sterile alpha motif domain containing 8) Rattus norvegicus
Analyze
Symbol: Samd8
Name: sterile alpha motif domain containing 8
RGD ID: 1306447
Description: Predicted to enable ceramide cholinephosphotransferase activity; ceramide phosphoethanolamine synthase activity; and sphingomyelin synthase activity. Predicted to be involved in ceramide biosynthetic process and regulation of ceramide biosynthetic process. Predicted to act upstream of or within ceramide phosphoethanolamine biosynthetic process. Predicted to be located in cytosol; endoplasmic reticulum; and membrane. Predicted to be active in Golgi membrane; endoplasmic reticulum membrane; and plasma membrane. Orthologous to human SAMD8 (sterile alpha motif domain containing 8); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC305684; sphingomyelin synthase-related protein 1
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
GRCr8152,561,435 - 2,611,702 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl152,561,435 - 2,607,052 (-)EnsemblGRCr8
mRatBN7.2152,512,104 - 2,562,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl152,515,385 - 2,557,693 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl152,512,105 - 2,515,379 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx152,518,859 - 2,564,433 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0153,905,305 - 3,950,879 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0152,517,656 - 2,563,233 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0152,685,504 - 2,731,062 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl152,685,511 - 2,731,462 (-)Ensemblrn6Rnor6.0
Rnor_5.0152,666,729 - 2,716,654 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4152,569,527 - 2,612,834 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera152,025,436 - 2,066,812 (+)NCBICelera
RGSC_v3.1152,569,530 - 2,612,834 (-)NCBI
Cytogenetic Map15p16NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:19506037   PMID:25605874   PMID:25667419  


Genomics

Comparative Map Data
Samd8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8152,561,435 - 2,611,702 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl152,561,435 - 2,607,052 (-)EnsemblGRCr8
mRatBN7.2152,512,104 - 2,562,368 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl152,515,385 - 2,557,693 (-)EnsemblmRatBN7.2
mRatBN7.2 Ensembl152,512,105 - 2,515,379 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx152,518,859 - 2,564,433 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0153,905,305 - 3,950,879 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0152,517,656 - 2,563,233 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0152,685,504 - 2,731,062 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl152,685,511 - 2,731,462 (-)Ensemblrn6Rnor6.0
Rnor_5.0152,666,729 - 2,716,654 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4152,569,527 - 2,612,834 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera152,025,436 - 2,066,812 (+)NCBICelera
RGSC_v3.1152,569,530 - 2,612,834 (-)NCBI
Cytogenetic Map15p16NCBI
SAMD8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381075,099,593 - 75,182,123 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1075,099,586 - 75,182,127 (+)Ensemblhg38GRCh38
GRCh371076,871,414 - 76,941,881 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361076,541,471 - 76,606,455 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341076,541,472 - 76,606,455NCBI
Celera1070,159,648 - 70,230,138 (+)NCBICelera
Cytogenetic Map10q22.2NCBI
HuRef1070,869,862 - 70,940,432 (+)NCBIHuRef
CHM1_11077,153,141 - 77,223,703 (+)NCBICHM1_1
T2T-CHM13v2.01075,973,091 - 76,055,617 (+)NCBIT2T-CHM13v2.0
Samd8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391421,800,599 - 21,848,794 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1421,800,599 - 21,848,794 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381421,750,531 - 21,798,726 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1421,750,531 - 21,798,726 (+)Ensemblmm10GRCm38
MGSCv371422,569,753 - 22,617,947 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361420,539,083 - 20,587,277 (+)NCBIMGSCv36mm8
Celera1418,133,724 - 18,181,197 (+)NCBICelera
Cytogenetic Map14A3NCBI
cM Map1411.86NCBI
Samd8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543716,900,688 - 16,969,042 (-)Ensembl
ChiLan1.0NW_00495543716,900,756 - 16,969,042 (-)NCBIChiLan1.0ChiLan1.0
SAMD8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2887,256,334 - 87,338,558 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11087,273,377 - 87,343,883 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01071,640,271 - 71,710,674 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11074,292,923 - 74,374,307 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1074,304,676 - 74,369,601 (+)EnsemblpanPan2panpan1.1
SAMD8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1425,375,127 - 25,424,792 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl425,374,837 - 25,421,075 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha425,510,520 - 25,559,989 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0425,657,930 - 25,707,475 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl425,657,239 - 25,707,475 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1425,553,042 - 25,602,565 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0425,753,678 - 25,803,145 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0426,109,236 - 26,158,733 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Samd8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721355,677,255 - 55,737,163 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365214,169,979 - 4,229,890 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365214,170,016 - 4,229,877 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SAMD8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1477,636,149 - 77,737,654 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11477,679,287 - 77,737,657 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21483,805,821 - 83,860,144 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SAMD8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1956,190,771 - 56,259,857 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl956,196,202 - 56,225,058 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604816,678,584 - 16,747,350 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Samd8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247548,465,981 - 8,550,666 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247548,466,049 - 8,553,721 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Samd8
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11291,530,558 - 91,572,331 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Samd8
178 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:64
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000018023
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
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15132342855Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
1300142Bp191Blood pressure QTL 1913.14arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)15115177511Rat

Markers in Region
D15Mco11  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8152,574,693 - 2,574,933 (+)Marker Load Pipeline
mRatBN7.2152,525,364 - 2,525,602 (+)MAPPERmRatBN7.2
Rnor_6.0152,698,698 - 2,698,937NCBIRnor6.0
Rnor_5.0152,679,895 - 2,680,134UniSTSRnor5.0
RGSC_v3.4152,579,102 - 2,579,341UniSTSRGSC3.4
RGSC_v3.4152,579,101 - 2,579,341RGDRGSC3.4
Celera152,057,446 - 2,057,683UniSTS
RGSC_v3.1152,579,101 - 2,579,341RGD
Cytogenetic Map15p16UniSTS


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 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000018023   ⟹   ENSRNOP00000018023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl152,561,435 - 2,607,052 (-)Ensembl
mRatBN7.2 Ensembl152,512,105 - 2,515,379 (+)Ensembl
Rnor_6.0 Ensembl152,685,511 - 2,731,462 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110077   ⟹   ENSRNOP00000095951
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl152,515,385 - 2,557,693 (-)Ensembl
RefSeq Acc Id: NM_001012040   ⟹   NP_001012040
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8152,561,435 - 2,607,052 (-)NCBI
mRatBN7.2152,512,104 - 2,557,724 (-)NCBI
Rnor_6.0152,689,634 - 2,731,062 (-)NCBI
Rnor_5.0152,666,729 - 2,716,654 (-)NCBI
RGSC_v3.4152,569,527 - 2,612,834 (-)RGD
Celera152,025,436 - 2,066,812 (+)RGD
Sequence:
RefSeq Acc Id: NM_001393835   ⟹   NP_001380764
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8152,561,435 - 2,607,052 (-)NCBI
mRatBN7.2152,512,104 - 2,557,724 (-)NCBI
RefSeq Acc Id: XM_039093233   ⟹   XP_038949161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8152,561,435 - 2,611,702 (-)NCBI
mRatBN7.2152,512,104 - 2,562,368 (-)NCBI
RefSeq Acc Id: XM_063274195   ⟹   XP_063130265
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8152,566,316 - 2,607,076 (-)NCBI
RefSeq Acc Id: NP_001012040   ⟸   NM_001012040
- Peptide Label: isoform 1
- UniProtKB: Q641X0 (UniProtKB/TrEMBL),   A6KKT1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018023   ⟸   ENSRNOT00000018023
RefSeq Acc Id: XP_038949161   ⟸   XM_039093233
- Peptide Label: isoform X1
- UniProtKB: A6KKT1 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000095951   ⟸   ENSRNOT00000110077
RefSeq Acc Id: NP_001380764   ⟸   NM_001393835
- Peptide Label: isoform 2
- UniProtKB: A0A8I6ARL7 (UniProtKB/TrEMBL),   A6KKT1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063130265   ⟸   XM_063274195
- Peptide Label: isoform X2
- UniProtKB: A6KKT2 (UniProtKB/TrEMBL)
Protein Domains
SAM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q641X0-F1-model_v2 AlphaFold Q641X0 1-478 view protein structure

Transcriptome

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

Promoters
RGD ID:13699547
Promoter ID:EPDNEW_R10071
Type:initiation region
Name:Samd8_1
Description:sterile alpha motif domain containing 8
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_6.0152,731,075 - 2,731,135EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1306447 AgrOrtholog
BioCyc Gene G2FUF-14600 BioCyc
BioCyc Pathway PWY3DJ-11281 [sphingomyelin metabolism] BioCyc
BioCyc Pathway Image PWY3DJ-11281 BioCyc
Ensembl Genes ENSRNOG00000013236 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000064565 Ensembl
Ensembl Transcript ENSRNOT00000018023 ENTREZGENE
  ENSRNOT00000018023.8 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134467 IMAGE-MGC_LOAD
InterPro SAM UniProtKB/TrEMBL
  SAM_type UniProtKB/TrEMBL
  Sphingomyelin_synth-like UniProtKB/TrEMBL
  Sphingomyelin_synth-like_dom UniProtKB/TrEMBL
KEGG Report rno:305684 UniProtKB/TrEMBL
MGC_CLONE MGC:95292 IMAGE-MGC_LOAD
NCBI Gene 305684 ENTREZGENE
PANTHER PTHR21290 UniProtKB/TrEMBL
  SPHINGOMYELIN SYNTHASE-RELATED PROTEIN 1 UniProtKB/TrEMBL
Pfam PAP2_C UniProtKB/TrEMBL
  SAM_1 UniProtKB/TrEMBL
PhenoGen Samd8 PhenoGen
PROSITE SAM_DOMAIN UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013236 RatGTEx
  ENSRNOG00000064565 RatGTEx
RNAcentral URS00022AF3F7 RNACentral
SMART SAM UniProtKB/TrEMBL
Superfamily-SCOP SAM_homology UniProtKB/TrEMBL
UniProt A0A8I6ARL7 ENTREZGENE
  A0ABK0L6F7_RAT UniProtKB/TrEMBL
  A6KKT1 ENTREZGENE, UniProtKB/TrEMBL
  A6KKT2 ENTREZGENE, UniProtKB/TrEMBL
  Q641X0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-12-06 Samd8  sterile alpha motif domain containing 8  Samd8_predicted  sterile alpha motif domain containing 8 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Samd8_predicted  sterile alpha motif domain containing 8 (predicted)      Symbol and Name status set to approved 70820 APPROVED