Samd4a (sterile alpha motif domain containing 4A) - Rat Genome Database

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Gene: Samd4a (sterile alpha motif domain containing 4A) Rattus norvegicus
Analyze
Symbol: Samd4a
Name: sterile alpha motif domain containing 4A
RGD ID: 1310361
Description: Predicted to enable mRNA binding activity and translation repressor activity. Involved in regulation of postsynapse assembly. Is active in glutamatergic synapse and postsynaptic density. Orthologous to human SAMD4A (sterile alpha motif domain containing 4A); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC305826; protein Smaug homolog 1; Samd4; smaug 1; sterile alpha motif domain containing 4; sterile alpha motif domain-containing protein 4A
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
GRCr81522,616,200 - 22,831,872 (+)NCBIGRCr8
mRatBN7.21520,135,994 - 20,352,131 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1520,134,377 - 20,348,380 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1523,028,162 - 23,132,762 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01523,986,142 - 24,090,738 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01522,236,621 - 22,342,037 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01523,666,543 - 23,879,067 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1523,665,202 - 23,878,539 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01527,721,129 - 27,820,974 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41522,847,701 - 22,952,499 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11522,749,949 - 22,967,670 (+)NCBI
Celera1520,645,446 - 20,745,819 (+)NCBICelera
Cytogenetic Map15p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,1-dichloroethene  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
6-propyl-2-thiouracil  (EXP)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
amitrole  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
avobenzone  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
butanal  (ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calyculin a  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cylindrospermopsin  (ISO)
DDE  (ISO)
diazinon  (ISO)
dibutyl phthalate  (EXP)
dichloroacetic acid  (ISO)
dicrotophos  (ISO)
dimethylarsinic acid  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
fenamidone  (ISO)
fluoxetine  (EXP)
folic acid  (ISO)
FR900359  (ISO)
furan  (EXP,ISO)
gentamycin  (EXP)
glutathione  (EXP)
glyphosate  (EXP)
hydralazine  (ISO)
indole-3-methanol  (EXP)
L-methionine  (ISO)
leflunomide  (ISO)
maneb  (ISO)
mercury dibromide  (ISO)
methimazole  (EXP)
methotrexate  (ISO)
methoxychlor  (EXP)
methylarsonic acid  (ISO)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
N-nitrosodiethylamine  (ISO)
nickel dichloride  (EXP,ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
pentachlorophenol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenylmercury acetate  (ISO)
propanal  (ISO)
quercetin  (ISO)
resorcinol  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium dodecyl sulfate  (ISO)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
Triptolide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cell junction  (ISO)
cytoplasm  (IEA)
cytosol  (IEA,ISO)
dendrite  (IEA)
fibrillar center  (IEA,ISO)
glutamatergic synapse  (IDA,IEP)
P-body  (IBA)
postsynaptic density  (IDA,IEP)
synapse  (IEA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Smaug1 mRNA-silencing foci respond to NMDA and modulate synapse formation. Baez MV, etal., J Cell Biol. 2011 Dec 26;195(7):1141-57. doi: 10.1083/jcb.201108159.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:16221671   PMID:22658674   PMID:30361391  


Genomics

Comparative Map Data
Samd4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81522,616,200 - 22,831,872 (+)NCBIGRCr8
mRatBN7.21520,135,994 - 20,352,131 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1520,134,377 - 20,348,380 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1523,028,162 - 23,132,762 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01523,986,142 - 24,090,738 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01522,236,621 - 22,342,037 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01523,666,543 - 23,879,067 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1523,665,202 - 23,878,539 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01527,721,129 - 27,820,974 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41522,847,701 - 22,952,499 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11522,749,949 - 22,967,670 (+)NCBI
Celera1520,645,446 - 20,745,819 (+)NCBICelera
Cytogenetic Map15p14NCBI
SAMD4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381454,565,316 - 54,793,315 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1454,566,117 - 54,793,315 (+)EnsemblGRCh38hg38GRCh38
GRCh371455,033,846 - 55,260,033 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361454,104,387 - 54,325,595 (+)NCBINCBI36Build 36hg18NCBI36
Build 341454,104,386 - 54,325,595NCBI
Celera1435,084,168 - 35,309,486 (+)NCBICelera
Cytogenetic Map14q22.2NCBI
HuRef1435,197,040 - 35,422,619 (+)NCBIHuRef
CHM1_11454,973,048 - 55,198,669 (+)NCBICHM1_1
T2T-CHM13v2.01448,771,187 - 48,998,510 (+)NCBIT2T-CHM13v2.0
Samd4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391447,120,414 - 47,343,274 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1447,120,311 - 47,343,272 (+)EnsemblGRCm39 Ensembl
GRCm381446,882,965 - 47,105,817 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1446,882,854 - 47,105,815 (+)EnsemblGRCm38mm10GRCm38
MGSCv371447,502,640 - 47,725,492 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361445,804,844 - 46,024,079 (+)NCBIMGSCv36mm8
MGSCv361438,712,160 - 38,932,128 (+)NCBIMGSCv36mm8
Celera1443,056,646 - 43,281,638 (+)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1424.41NCBI
Samd4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554098,712,061 - 8,916,816 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554098,716,432 - 8,916,398 (-)NCBIChiLan1.0ChiLan1.0
SAMD4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21555,687,572 - 55,914,688 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11454,904,045 - 55,131,198 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01435,153,002 - 35,380,018 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11453,432,110 - 53,658,531 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1453,566,636 - 53,654,151 (+)Ensemblpanpan1.1panPan2
SAMD4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1830,476,425 - 30,687,240 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl830,476,418 - 30,687,240 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha830,243,508 - 30,455,649 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0830,732,570 - 30,943,425 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl830,732,557 - 30,945,114 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1830,336,559 - 30,547,600 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0830,412,983 - 30,623,593 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0830,778,494 - 30,989,083 (+)NCBIUU_Cfam_GSD_1.0
Samd4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864074,558,422 - 74,768,804 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936697336,981 - 541,150 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936697332,577 - 543,748 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SAMD4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1183,915,512 - 184,140,115 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11183,915,337 - 184,140,122 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21204,436,496 - 204,645,195 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SAMD4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12431,743,735 - 31,976,009 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2431,743,560 - 31,976,053 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605319,971,620 - 20,214,772 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Samd4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473114,537,065 - 14,742,406 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473114,537,063 - 14,744,703 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Samd4a
1533 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:36
Interacting mature miRNAs:39
Transcripts:ENSRNOT00000060847
Prediction methods: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
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15226636822711984Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)151059608955596089Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151736289773690657Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15142356671Rat
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15141686771Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15226636846921453Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152024860037896129Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151111114256111142Rat
9589149Insul29Insulin level QTL 299.060.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)15134723002Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)151985656646187442Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151672552880672115Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1530632945306329Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)15553075650530756Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15129912054Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151249614165205939Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15155302115Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)151985656634924750Rat
8552920Pigfal8Plasma insulin-like growth factor 1 level QTL 83blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)15134723002Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151111114256111142Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151448116528469888Rat
8694361Abfw6Abdominal fat weight QTL 610.20.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)15134723002Rat

Markers in Region
D15Got30  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21520,150,398 - 20,150,565 (+)MAPPERmRatBN7.2
Rnor_6.01523,680,967 - 23,681,133NCBIRnor6.0
Rnor_5.01527,624,947 - 27,625,113UniSTSRnor5.0
RGSC_v3.41522,750,252 - 22,750,419RGDRGSC3.4
RGSC_v3.41522,750,253 - 22,750,419UniSTSRGSC3.4
RGSC_v3.11522,765,953 - 22,766,119RGD
Celera1520,548,789 - 20,548,955UniSTS
RH 3.4 Map15178.0RGD
RH 3.4 Map15178.0UniSTS
Cytogenetic Map15p14UniSTS
BF386303  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21520,214,869 - 20,215,061 (+)MAPPERmRatBN7.2
Rnor_6.01523,745,243 - 23,745,434NCBIRnor6.0
Rnor_5.01527,688,531 - 27,688,722UniSTSRnor5.0
RGSC_v3.41522,815,103 - 22,815,294UniSTSRGSC3.4
Celera1520,612,853 - 20,613,044UniSTS
RH 3.4 Map15188.2UniSTS
Cytogenetic Map15p14UniSTS
BF414877  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21520,296,951 - 20,297,139 (+)MAPPERmRatBN7.2
Rnor_6.01523,827,707 - 23,827,894NCBIRnor6.0
Rnor_5.01527,771,122 - 27,771,309UniSTSRnor5.0
RGSC_v3.41522,898,103 - 22,898,290UniSTSRGSC3.4
Celera1520,694,876 - 20,695,063UniSTS
RH 3.4 Map15187.3UniSTS
Cytogenetic Map15p14UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000060847   ⟹   ENSRNOP00000057570
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1520,247,469 - 20,342,182 (+)Ensembl
Rnor_6.0 Ensembl1523,777,856 - 23,878,539 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000089226   ⟹   ENSRNOP00000069137
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1520,134,377 - 20,347,852 (+)Ensembl
Rnor_6.0 Ensembl1523,665,202 - 23,872,143 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000092091   ⟹   ENSRNOP00000069646
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1520,247,469 - 20,348,380 (+)Ensembl
Rnor_6.0 Ensembl1523,792,931 - 23,877,153 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000107922   ⟹   ENSRNOP00000096104
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1520,134,377 - 20,347,852 (+)Ensembl
RefSeq Acc Id: NM_001399774   ⟹   NP_001386703
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,727,269 - 22,831,872 (+)NCBI
mRatBN7.21520,247,516 - 20,352,131 (+)NCBI
RefSeq Acc Id: XM_039093258   ⟹   XP_038949186
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,616,200 - 22,827,590 (+)NCBI
mRatBN7.21520,135,994 - 20,349,736 (+)NCBI
RefSeq Acc Id: XM_039093259   ⟹   XP_038949187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,616,200 - 22,827,590 (+)NCBI
mRatBN7.21520,136,394 - 20,352,131 (+)NCBI
RefSeq Acc Id: XM_039093261   ⟹   XP_038949189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,793,437 - 22,827,590 (+)NCBI
mRatBN7.21520,313,697 - 20,352,131 (+)NCBI
RefSeq Acc Id: XM_063274206   ⟹   XP_063130276
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,616,200 - 22,827,590 (+)NCBI
RefSeq Acc Id: XM_063274207   ⟹   XP_063130277
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,616,200 - 22,827,590 (+)NCBI
RefSeq Acc Id: XM_063274208   ⟹   XP_063130278
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,616,200 - 22,827,590 (+)NCBI
Ensembl Acc Id: ENSRNOP00000069646   ⟸   ENSRNOT00000092091
Ensembl Acc Id: ENSRNOP00000069137   ⟸   ENSRNOT00000089226
Ensembl Acc Id: ENSRNOP00000057570   ⟸   ENSRNOT00000060847
RefSeq Acc Id: XP_038949186   ⟸   XM_039093258
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JUK8 (UniProtKB/TrEMBL),   A0A0G2JVW7 (UniProtKB/TrEMBL),   A6KE35 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949187   ⟸   XM_039093259
- Peptide Label: isoform X3
- UniProtKB: A0A8I6GLX6 (UniProtKB/TrEMBL),   A6KE36 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038949189   ⟸   XM_039093261
- Peptide Label: isoform X6
- UniProtKB: A6KE37 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000096104   ⟸   ENSRNOT00000107922
RefSeq Acc Id: NP_001386703   ⟸   NM_001399774
- UniProtKB: B5DF21 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063130276   ⟸   XM_063274206
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063130277   ⟸   XM_063274207
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063130278   ⟸   XM_063274208
- Peptide Label: isoform X5
Protein Domains
SAM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B5DF21-F1-model_v2 AlphaFold B5DF21 1-610 view protein structure

Transcriptome

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

Promoters
RGD ID:13699621
Promoter ID:EPDNEW_R10131
Type:initiation region
Name:Samd4a_2
Description:sterile alpha motif domain containing 4A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10132  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01523,777,886 - 23,777,946EPDNEW
RGD ID:13699608
Promoter ID:EPDNEW_R10132
Type:single initiation site
Name:Samd4a_1
Description:sterile alpha motif domain containing 4A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R10131  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01523,792,876 - 23,792,936EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310361 AgrOrtholog
BioCyc Gene G2FUF-14166 BioCyc
Ensembl Genes ENSRNOG00000010489 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000060847.5 UniProtKB/TrEMBL
  ENSRNOT00000089226.2 UniProtKB/TrEMBL
  ENSRNOT00000092091.2 UniProtKB/TrEMBL
  ENSRNOT00000107922.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  1.25.40.170 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PHAT_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SAM/pointed_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMAUG/VTS1_RNA-bind UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Smaug_SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 305826 ENTREZGENE
PANTHER PROTEIN SMAUG HOMOLOG 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STERILE ALPHA MOTIF DOMAIN CONTAINING PROTEIN 4-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SAM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Samd4a PhenoGen
RatGTEx ENSRNOG00000010489 RatGTEx
SMART SAM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47769 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JUK8 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2JVW7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GLX6 ENTREZGENE, UniProtKB/TrEMBL
  A6KE35 ENTREZGENE, UniProtKB/TrEMBL
  A6KE36 ENTREZGENE, UniProtKB/TrEMBL
  A6KE37 ENTREZGENE, UniProtKB/TrEMBL
  B5DF21 ENTREZGENE
  F1M7M7_RAT UniProtKB/TrEMBL
  SMAG1_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-18 Samd4a  sterile alpha motif domain containing 4A  Samd4  sterile alpha motif domain containing 4   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Samd4  sterile alpha motif domain containing 4   Samd4_predicted  sterile alpha motif domain containing 4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Samd4_predicted  sterile alpha motif domain containing 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED