Smim20 (small integral membrane protein 20) - Rat Genome Database

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Gene: Smim20 (small integral membrane protein 20) Rattus norvegicus
Analyze
Symbol: Smim20 (Ensembl: AABR07015507.1)
Name: small integral membrane protein 20
RGD ID: 1565192
Description: Predicted to be involved in mitochondrial cytochrome c oxidase assembly. Predicted to be located in extracellular region; membrane; and mitochondrion. Predicted to be active in mitochondrial inner membrane. Orthologous to human SMIM20 (small integral membrane protein 20); INTERACTS WITH 1-naphthyl isothiocyanate; bisphenol A; dibutyl phthalate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC501923; LOC501923; mitochondrial translation regulation assembly intermediate of cytochrome c oxidase protein of 7 kDa; MITRAC7; phoenixin; PNX; RGD1565192; similar to 1810013D10Rik protein; uncharacterized protein LOC501923
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
GRCr81461,924,155 - 61,935,630 (-)NCBIGRCr8
mRatBN7.21457,711,304 - 57,722,681 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1457,711,307 - 57,722,681 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1462,113,099 - 62,124,466 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01463,424,314 - 63,435,694 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01459,821,078 - 59,832,459 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01460,057,493 - 60,069,870 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01460,179,583 - 60,190,533 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41462,461,060 - 62,470,889 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1456,813,315 - 56,824,681 (-)NCBICelera
Cytogenetic Map14q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7667285   PMID:8889548   PMID:22963497   PMID:26321642   PMID:31637758   PMID:33059202   PMID:33928538  


Genomics

Comparative Map Data
Smim20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81461,924,155 - 61,935,630 (-)NCBIGRCr8
mRatBN7.21457,711,304 - 57,722,681 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1457,711,307 - 57,722,681 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1462,113,099 - 62,124,466 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01463,424,314 - 63,435,694 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01459,821,078 - 59,832,459 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01460,057,493 - 60,069,870 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01460,179,583 - 60,190,533 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41462,461,060 - 62,470,889 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1456,813,315 - 56,824,681 (-)NCBICelera
Cytogenetic Map14q11NCBI
SMIM20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38425,914,220 - 25,929,812 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl425,861,830 - 25,929,813 (+)EnsemblGRCh38hg38GRCh38
GRCh37425,915,842 - 25,931,434 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36425,524,626 - 25,540,611 (+)NCBINCBI36Build 36hg18NCBI36
Celera426,363,965 - 26,380,057 (+)NCBICelera
Cytogenetic Map4p15.2NCBI
HuRef425,254,090 - 25,269,776 (+)NCBIHuRef
CHM1_1425,915,589 - 25,931,294 (+)NCBICHM1_1
T2T-CHM13v2.0425,896,311 - 25,911,902 (+)NCBIT2T-CHM13v2.0
Smim20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39553,424,448 - 53,435,882 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl553,424,425 - 53,435,882 (+)EnsemblGRCm39 Ensembl
GRCm38553,267,106 - 53,278,540 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl553,267,083 - 53,278,540 (+)EnsemblGRCm38mm10GRCm38
MGSCv37553,658,345 - 53,669,779 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36553,551,738 - 53,566,791 (+)NCBIMGSCv36mm8
Celera550,647,813 - 50,659,239 (+)NCBICelera
Cytogenetic Map5C1NCBI
cM Map529.05NCBI
Smim20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544319,243,419 - 19,253,798 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544319,242,776 - 19,254,002 (-)NCBIChiLan1.0ChiLan1.0
SMIM20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2326,153,851 - 26,175,973 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1426,356,606 - 26,371,517 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0420,312,816 - 20,327,746 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1425,591,220 - 25,606,393 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl425,591,220 - 25,606,393 (+)Ensemblpanpan1.1panPan2
SMIM20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1384,481,897 - 84,494,863 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl384,481,901 - 84,494,833 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha386,993,124 - 87,005,974 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0385,451,073 - 85,463,991 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl385,449,481 - 85,463,978 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1384,572,599 - 84,585,453 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0384,692,674 - 84,705,528 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0385,077,331 - 85,090,191 (-)NCBIUU_Cfam_GSD_1.0
Smim20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528550,045,100 - 50,053,417 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364773,746,766 - 3,755,070 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364773,746,766 - 3,755,075 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMIM20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1819,701,022 - 19,714,563 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2820,091,900 - 20,105,894 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMIM20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12724,413,717 - 24,436,003 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604770,929,248 - 70,944,265 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smim20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247556,626,527 - 6,635,786 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247556,625,911 - 6,635,894 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Smim20
26 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1581500Renag1Renal agenesis QTL 1kidney development trait (VT:0000527)percentage of study population developing unilateral renal agenesis during a period of time (CMO:0000940)14817066868298175Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141103062295876975Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141854133263541332Rat
10755459Coatc15Coat color QTL 150.01681coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)141983694464836944Rat
70187Pancm5Pancreatic morphology QTL 516.7pancreas mass (VT:0010144)pancreas weight to body weight ratio (CMO:0000630)143032009280829842Rat
1300154Bp189Blood pressure QTL 1893.04arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)143088377768757901Rat
2313048Bss84Bone structure and strength QTL 843.10.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143766971982669719Rat
2313084Bss83Bone structure and strength QTL 832.90.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143766971982669719Rat
2313089Bss81Bone structure and strength QTL 813.40.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)143766971982669719Rat
2313100Bss82Bone structure and strength QTL 8230.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143766971982669719Rat
738037Hcas6Hepatocarcinoma susceptibility QTL 62.93liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)143905723783368335Rat
70214Niddm28Non-insulin dependent diabetes mellitus QTL 284.06blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)143999825175582726Rat
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
1300136Rf22Renal function QTL 223.9renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)144226252995023211Rat
1549834Scl45Serum cholesterol level QTL 455.8blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)145002321195023211Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat

Markers in Region
RH131307  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21457,711,434 - 57,711,630 (+)MAPPERmRatBN7.2
Rnor_6.01460,057,624 - 60,057,818NCBIRnor6.0
Rnor_5.01460,179,582 - 60,179,776UniSTSRnor5.0
Celera1456,813,447 - 56,813,641UniSTS
Cytogenetic Map14q11UniSTS
RH143720  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21457,711,448 - 57,711,697 (+)MAPPERmRatBN7.2
Rnor_6.01460,057,637 - 60,057,885NCBIRnor6.0
Rnor_5.01460,179,595 - 60,179,843UniSTSRnor5.0
Celera1456,813,460 - 56,813,708UniSTS
RH 3.4 Map14453.68UniSTS
Cytogenetic Map14q11UniSTS


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000084451   ⟹   ENSRNOP00000081190
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1457,711,307 - 57,722,681 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091794   ⟹   ENSRNOP00000088034
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1457,711,309 - 57,722,648 (-)Ensembl
RefSeq Acc Id: NM_001134639   ⟹   NP_001128111
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,924,155 - 61,935,532 (-)NCBI
mRatBN7.21457,711,304 - 57,722,681 (-)NCBI
Rnor_6.01460,057,493 - 60,069,870 (-)NCBI
Rnor_5.01460,179,583 - 60,190,533 (-)NCBI
RGSC_v3.41462,461,060 - 62,470,889 (-)RGD
Celera1456,813,315 - 56,824,681 (-)RGD
Sequence:
RefSeq Acc Id: XM_063273503   ⟹   XP_063129573
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81461,924,155 - 61,935,630 (-)NCBI
RefSeq Acc Id: NP_001128111   ⟸   NM_001134639
- UniProtKB: C0HLM6 (UniProtKB/Swiss-Prot),   A6IJF8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000081190   ⟸   ENSRNOT00000084451
RefSeq Acc Id: ENSRNOP00000088034   ⟸   ENSRNOT00000091794
RefSeq Acc Id: XP_063129573   ⟸   XM_063273503
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-C0HLM6-F1-model_v2 AlphaFold C0HLM6 1-69 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565192 AgrOrtholog
BioCyc Gene G2FUF-15609 BioCyc
Ensembl Genes ENSRNOG00000051190 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084451.2 UniProtKB/TrEMBL
  ENSRNOT00000091794.2 UniProtKB/TrEMBL
InterPro SMIM20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:501923 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 501923 ENTREZGENE
PANTHER PTHR34923 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SMALL INTEGRAL MEMBRANE PROTEIN 20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DUF4538 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Smim20 PhenoGen
RatGTEx ENSRNOG00000051190 RatGTEx
UniProt A0A8I5ZUJ5_RAT UniProtKB/TrEMBL
  A0A8I6GFR3_RAT UniProtKB/TrEMBL
  A6IJF8 ENTREZGENE, UniProtKB/TrEMBL
  C0HLM6 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-20 Smim20  small integral membrane protein 20  RGD1565192  similar to 1810013D10Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1565192  similar to 1810013D10Rik protein   RGD1565192_predicted  similar to 1810013D10Rik protein (predicted)  'predicted' is removed 2292626 APPROVED
2008-01-09 RGD1565192_predicted  similar to 1810013D10Rik protein (predicted)  LOC679333  hypothetical protein LOC679333  Data merged from RGD:1589539 1643240 APPROVED
2006-11-19 LOC679333  hypothetical protein LOC679333      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1565192_predicted  similar to 1810013D10Rik protein (predicted)  LOC501923  similar to 1810013D10Rik protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC501923  similar to 1810013D10Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL