Samm50 (SAMM50 sorting and assembly machinery component) - Rat Genome Database

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Gene: Samm50 (SAMM50 sorting and assembly machinery component) Rattus norvegicus
Analyze
Symbol: Samm50
Name: SAMM50 sorting and assembly machinery component
RGD ID: 1303219
Description: Predicted to be involved in cristae formation; protein import into mitochondrial matrix; and protein insertion into mitochondrial outer membrane. Predicted to be located in mitochondrial outer membrane. Predicted to be part of SAM complex. Human ortholog(s) of this gene implicated in metabolic dysfunction-associated steatotic liver disease. Orthologous to human SAMM50 (SAMM50 sorting and assembly machinery component); PARTICIPATES IN beta-barrel pathway of mitochondrial protein import; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: MGC94439; similar to Protein CGI-51; sorting and assembly machinery component 50 homolog; sorting and assembly machinery component 50 homolog (S. cerevisiae); sorting and assembly machinery component 50 homolog A
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
GRCr87117,197,460 - 117,221,668 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7117,197,381 - 117,224,581 (+)EnsemblGRCr8
mRatBN7.27115,317,472 - 115,341,682 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7115,317,404 - 115,341,682 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7117,065,348 - 117,089,536 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07119,291,076 - 119,315,264 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07119,260,536 - 119,284,726 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd7119,227,015 - 119,251,185 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive7120,180,167 - 120,204,537 (+)NCBILyon_Normotensive
Lyon_Hypertensive7120,306,013 - 120,330,380 (+)NCBILyon_Hypertensive
F344_StmMcwi7118,789,841 - 118,814,029 (+)NCBIF344_StmMcwi
Rnor_6.07125,058,966 - 125,082,506 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7125,058,897 - 125,082,505 (+)Ensemblrn6Rnor6.0
Rnor_5.07125,047,478 - 125,071,018 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47122,176,824 - 122,201,032 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7111,623,449 - 111,647,630 (+)NCBICelera
RGSC_v3.17122,211,053 - 122,235,261 (+)NCBI
Cytogenetic Map7q34NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,4,6-trinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (EXP)
Benoxacor  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
Brodifacoum  (EXP)
cadmium dichloride  (EXP,ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
choline  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (ISO)
elemental selenium  (ISO)
epoxiconazole  (ISO)
eugenol  (EXP)
flutamide  (EXP)
folic acid  (ISO)
FR900359  (ISO)
hydralazine  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
lead(0)  (ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (ISO)
methoxychlor  (EXP)
N(4)-hydroxycytidine  (ISO)
nefazodone  (EXP)
nitrates  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
permethrin  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
selenium atom  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
thapsigargin  (ISO)
thiram  (ISO)
titanium dioxide  (ISO)
Triptolide  (EXP)
tunicamycin  (ISO)
valproic acid  (ISO)
vitamin E  (ISO)
zearalenone  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Genetic analysis of nonalcoholic fatty liver disease within a Caribbean-Hispanic population. Edelman D, etal., Mol Genet Genomic Med. 2015 Aug 11;3(6):558-69. doi: 10.1002/mgg3.168. eCollection 2015 Nov.
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. Assembly of beta-barrel proteins in the mitochondrial outer membrane. Hohr AI, etal., Biochim Biophys Acta. 2015 Jan;1853(1):74-88. doi: 10.1016/j.bbamcr.2014.10.006. Epub 2014 Oct 8.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:12865426   PMID:15644312   PMID:18614015   PMID:19056867   PMID:20833797   PMID:21700703   PMID:22252321   PMID:23376485   PMID:25781180   PMID:26316108  


Genomics

Comparative Map Data
Samm50
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87117,197,460 - 117,221,668 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl7117,197,381 - 117,224,581 (+)EnsemblGRCr8
mRatBN7.27115,317,472 - 115,341,682 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7115,317,404 - 115,341,682 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx7117,065,348 - 117,089,536 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07119,291,076 - 119,315,264 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07119,260,536 - 119,284,726 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd7119,227,015 - 119,251,185 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive7120,180,167 - 120,204,537 (+)NCBILyon_Normotensive
Lyon_Hypertensive7120,306,013 - 120,330,380 (+)NCBILyon_Hypertensive
F344_StmMcwi7118,789,841 - 118,814,029 (+)NCBIF344_StmMcwi
Rnor_6.07125,058,966 - 125,082,506 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7125,058,897 - 125,082,505 (+)Ensemblrn6Rnor6.0
Rnor_5.07125,047,478 - 125,071,018 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.47122,176,824 - 122,201,032 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera7111,623,449 - 111,647,630 (+)NCBICelera
RGSC_v3.17122,211,053 - 122,235,261 (+)NCBI
Cytogenetic Map7q34NCBI
SAMM50
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382243,955,442 - 43,996,529 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2243,955,399 - 44,010,531 (+)Ensemblhg38GRCh38
GRCh372244,351,322 - 44,392,409 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362242,682,634 - 42,723,745 (+)NCBIBuild 36Build 36hg18NCBI36
Celera2228,262,860 - 28,304,013 (+)NCBICelera
Cytogenetic Map22q13.31NCBI
HuRef2227,305,853 - 27,346,273 (+)NCBIHuRef
CHM1_12244,309,992 - 44,351,172 (+)NCBICHM1_1
T2T-CHM13v2.02244,438,587 - 44,480,322 (+)NCBIT2T-CHM13v2.0
Samm50
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391584,076,441 - 84,100,284 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1584,076,442 - 84,101,468 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381584,192,240 - 84,216,083 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1584,192,241 - 84,217,267 (+)Ensemblmm10GRCm38
MGSCv371584,022,663 - 84,044,733 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361584,020,006 - 84,043,843 (+)NCBIMGSCv36mm8
Celera1586,323,153 - 86,345,226 (+)NCBICelera
Cytogenetic Map15E2NCBI
cM Map1539.78NCBI
Samm50
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541328,901,124 - 28,925,093 (+)Ensembl
ChiLan1.0NW_00495541328,901,124 - 28,925,093 (+)NCBIChiLan1.0ChiLan1.0
SAMM50
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22353,781,582 - 53,825,655 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12256,476,480 - 56,518,165 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02224,844,400 - 24,886,056 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12243,035,981 - 43,076,975 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2243,035,981 - 43,076,977 (+)EnsemblpanPan2panpan1.1
PARVB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11021,549,654 - 21,629,771 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1021,551,998 - 21,640,781 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1021,492,217 - 21,589,726 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01022,300,594 - 22,397,773 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1022,299,169 - 22,397,976 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11022,019,817 - 22,117,314 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01022,340,152 - 22,437,648 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01022,513,879 - 22,611,416 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Samm50
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049455,311,710 - 5,337,171 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367181,642,970 - 1,668,536 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367181,642,994 - 1,668,458 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SAMM50
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl55,035,895 - 5,071,277 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.155,035,893 - 5,072,550 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SAMM50
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11926,467,319 - 26,509,695 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1926,467,278 - 26,510,168 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604598,895,141 - 98,937,561 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Samm50
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247525,136,570 - 5,152,864 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247525,136,487 - 5,152,557 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Samm50
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11253,579,225 - 253,603,989 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Samm50
132 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:66
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000016520
Prediction methods:Microtar, Miranda, Rnahybrid
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
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)792388565119280177Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)782111245123048330Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7104186212135371468Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)773618702118618702Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)793302009131686183Rat
61397Bw17Body weight QTL 176.3body mass (VT:0001259)body weight (CMO:0000012)795485047137014596Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7115313999136544683Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)746307490127866166Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)785043242130043242Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)785497398130497398Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)792362341137014596Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)783626689128626689Rat
631529Tls2T-lymphoma susceptibility QTL 200.001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)782111382132099989Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)798549867137014596Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
631201Panci1Pancreas inflammation QTL 100.001pancreas integrity trait (VT:0010560)percentage of study population displaying chronic pancreatitis at a point in time (CMO:0001214)773557047118557047Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)782111245123048330Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)740540077123682549Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)796700404118618702Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7110725024135371468Rat
10450862Kidm55Kidney mass QTL 554.9kidney mass (VT:0002707)kidney weight (CMO:0000081)772725037117725037Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)7100548246137014596Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)782111245134948181Rat
10450856Livw4Liver weight QTL 43.8liver mass (VT:0003402)liver weight (CMO:0000092)772725037117725037Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)777807807122807807Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7116269196132020414Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)778682549123682549Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)771621154119349044Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)771827901136544683Rat

Markers in Region
RH138398  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27115,319,405 - 115,319,643 (+)MAPPERmRatBN7.2
Rnor_6.07125,060,900 - 125,061,137NCBIRnor6.0
Rnor_5.07125,049,412 - 125,049,649UniSTSRnor5.0
RGSC_v3.47122,178,758 - 122,178,995UniSTSRGSC3.4
Celera7111,625,383 - 111,625,620UniSTS
RH 3.4 Map7912.4UniSTS
Cytogenetic Map7q34UniSTS


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 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000016520   ⟹   ENSRNOP00000016520
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7117,197,381 - 117,222,780 (+)Ensembl
mRatBN7.2 Ensembl7115,317,404 - 115,341,682 (+)Ensembl
Rnor_6.0 Ensembl7125,058,897 - 125,082,505 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000095544   ⟹   ENSRNOP00000087763
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7117,197,381 - 117,224,581 (+)Ensembl
mRatBN7.2 Ensembl7115,317,449 - 115,341,673 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000098420   ⟹   ENSRNOP00000096189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7117,200,772 - 117,219,518 (+)Ensembl
mRatBN7.2 Ensembl7115,320,784 - 115,339,532 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000158271   ⟹   ENSRNOP00000105085
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl7117,197,381 - 117,224,581 (+)Ensembl
RefSeq Acc Id: NM_001004241   ⟹   NP_001004241
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr87117,197,460 - 117,221,668 (+)NCBI
mRatBN7.27115,317,472 - 115,341,682 (+)NCBI
Dahl_SR_JrHsd7119,227,015 - 119,251,185 (+)NCBI
Lyon_Normotensive7120,180,167 - 120,204,537 (+)NCBI
Lyon_Hypertensive7120,306,013 - 120,330,380 (+)NCBI
F344_StmMcwi7118,789,841 - 118,814,029 (+)NCBI
Rnor_6.07125,058,966 - 125,082,506 (+)NCBI
Rnor_5.07125,047,478 - 125,071,018 (+)NCBI
RGSC_v3.47122,176,824 - 122,201,032 (+)RGD
Celera7111,623,449 - 111,647,630 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001004241 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH79302 (Get FASTA)   NCBI Sequence Viewer  
  EDM15607 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016520.5
  ENSRNOP00000105085
GenBank Protein Q6AXV4 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001004241   ⟸   NM_001004241
- UniProtKB: Q6AXV4 (UniProtKB/Swiss-Prot),   A6HTB5 (UniProtKB/TrEMBL),   A0A8I6A9E2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000016520   ⟸   ENSRNOT00000016520
Ensembl Acc Id: ENSRNOP00000096189   ⟸   ENSRNOT00000098420
Ensembl Acc Id: ENSRNOP00000087763   ⟸   ENSRNOT00000095544
Ensembl Acc Id: ENSRNOP00000105085   ⟸   ENSRNOT00000158271
Protein Domains
Bacterial surface antigen (D15)   POTRA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AXV4-F1-model_v2 AlphaFold Q6AXV4 1-469 view protein structure

Transcriptome

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

Promoters
RGD ID:13695555
Promoter ID:EPDNEW_R6080
Type:initiation region
Name:Samm50_1
Description:SAMM50 sorting and assembly machinery component
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_6.07125,058,912 - 125,058,972EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1303219 AgrOrtholog
BioCyc Gene G2FUF-32581 BioCyc
Ensembl Genes ENSRNOG00000011952 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000016520.7 UniProtKB/Swiss-Prot
  ENSRNOT00000158271 ENTREZGENE
Gene3D-CATH membrane protein fhac UniProtKB/Swiss-Prot
  membrane protein fhac: a member of the omp85/tpsb transporter family UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7134547 IMAGE-MGC_LOAD
InterPro Bac_surfAg_D15 UniProtKB/Swiss-Prot
  D15-like UniProtKB/Swiss-Prot
  POTRA UniProtKB/Swiss-Prot
KEGG Report rno:300111 UniProtKB/Swiss-Prot
MGC_CLONE MGC:94439 IMAGE-MGC_LOAD
NCBI Gene 300111 ENTREZGENE
PANTHER PTHR12815 UniProtKB/Swiss-Prot
  SORTING AND ASSEMBLY MACHINERY COMPONENT 50 HOMOLOG UniProtKB/Swiss-Prot
Pfam Bac_surface_Ag UniProtKB/Swiss-Prot
PhenoGen Samm50 PhenoGen
PROSITE POTRA UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000011952 RatGTEx
UniProt A0A8I6A9E2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6B3U3_RAT UniProtKB/TrEMBL
  A6HTB5 ENTREZGENE, UniProtKB/TrEMBL
  Q6AXV4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-18 Samm50  SAMM50 sorting and assembly machinery component  Samm50  sorting and assembly machinery component 50 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Samm50  sorting and assembly machinery component 50 homolog (S. cerevisiae)  MGC94439  similar to Protein CGI-51  Symbol and Name updated 1299863 APPROVED
2005-09-30 MGC94439        Symbol and Name status set to provisional 70820 PROVISIONAL