Smim19 (small integral membrane protein 19) - Rat Genome Database

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Gene: Smim19 (small integral membrane protein 19) Rattus norvegicus
Analyze
Symbol: Smim19
Name: small integral membrane protein 19
RGD ID: 2318364
Description: Predicted to be located in membrane. Orthologous to human SMIM19 (small integral membrane protein 19); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; cadmium dichloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100362321; rCG43335-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,245,838 - 76,266,786 (+)NCBIGRCr8
mRatBN7.21669,551,507 - 69,564,323 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1674,825,210 - 74,838,026 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,256,304 - 78,269,051 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01673,505,490 - 73,518,237 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01674,408,085 - 74,422,070 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,042,983 - 74,057,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,174,551 - 74,187,927 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1667,441,788 - 67,455,777 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Smim19RatIdiopathic Basal Ganglia Calcification 1  ISORGD:16026608554872ClinVar Annotator: match by term: Idiopathic basal ganglia calcification 1ClinVarPMID:25741868|PMID:27726124
Smim19RatIMMUNODEFICIENCY 15  ISORGD:16026608554872ClinVar Annotator: match by term: Immunodeficiency 15ClinVarPMID:28492532
Smim19Ratimmunodeficiency 15B  ISORGD:16026608554872ClinVar Annotator: match by term: IMMUNODEFICIENCY 15BClinVarPMID:28492532
Smim19Rattorsion dystonia 6  ISORGD:16026608554872ClinVar Annotator: match by term: Torsion dystonia 6ClinVarPMID:28492532

1 to 20 of 37 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Smim19Rat(+)-schisandrin B multiple interactionsEXP 6480464schizandrin B inhibits the reaction [Carbon Tetrachloride results in decreased expression of SMIM19 mRNA]CTDPMID:31150632
Smim19Rat17beta-estradiol decreases expressionISORGD:16026606480464Estradiol results in decreased expression of SMIM19 mRNACTDPMID:23019147
Smim19Rat17beta-estradiol increases expressionISORGD:16190536480464Estradiol results in increased expression of SMIM19 mRNACTDPMID:39298647
Smim19Rat2,3,7,8-tetrachlorodibenzodioxine increases expressionEXP 6480464Tetrachlorodibenzodioxin results in increased expression of SMIM19 mRNACTDPMID:33387578
Smim19Rat2-hydroxypropanoic acid decreases expressionISORGD:16026606480464Lactic Acid results in decreased expression of SMIM19 mRNACTDPMID:30851411
Smim19Rataflatoxin B1 decreases methylationISORGD:16026606480464Aflatoxin B1 results in decreased methylation of SMIM19 geneCTDPMID:27153756
Smim19Ratall-trans-retinoic acid decreases expressionISORGD:16026606480464Tretinoin results in decreased expression of SMIM19 mRNACTDPMID:33167477
Smim19Ratantirheumatic drug increases expressionISORGD:16026606480464Antirheumatic Agents results in increased expression of SMIM19 mRNACTDPMID:24449571
Smim19Ratbenzo[a]pyrene affects methylationISORGD:16026606480464Benzo(a)pyrene affects the methylation of SMIM19 promoterCTDPMID:27901495
Smim19Ratbenzo[a]pyrene diol epoxide I increases expressionISORGD:160266064804647,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide results in increased expression of SMIM19 mRNACTDPMID:19150397
Smim19Ratcadmium dichloride increases expressionEXP 6480464Cadmium Chloride results in increased expression of SMIM19 mRNACTDPMID:33453195
Smim19Ratchlorpyrifos decreases expressionISORGD:16190536480464Chlorpyrifos results in decreased expression of SMIM19 mRNACTDPMID:32715474
Smim19Ratcopper(II) sulfate decreases expressionISORGD:16026606480464Copper Sulfate results in decreased expression of SMIM19 mRNACTDPMID:19549813
Smim19Ratcyclosporin A decreases expressionISORGD:16026606480464Cyclosporine results in decreased expression of SMIM19 mRNACTDPMID:25562108
Smim19RatDibutyl phosphate affects expressionISORGD:16026606480464di-n-butylphosphoric acid affects the expression of SMIM19 mRNACTDPMID:37042841
Smim19Ratdoxorubicin increases expressionISORGD:16026606480464Doxorubicin results in increased expression of SMIM19 mRNACTDPMID:29803840
Smim19Ratformaldehyde increases expressionISORGD:16026606480464Formaldehyde results in increased expression of SMIM19 mRNACTDPMID:23649840
Smim19Ratgentamycin decreases expressionEXP 6480464Gentamicins results in decreased expression of SMIM19 mRNACTDPMID:33387578
Smim19RatGSK-J4 decreases expressionISORGD:16026606480464GSK-J4 results in decreased expression of SMIM19 mRNACTDPMID:29301935
Smim19Rathydrogen peroxide affects expressionISORGD:16026606480464Hydrogen Peroxide affects the expression of SMIM19 mRNACTDPMID:23410634

1 to 20 of 37 rows

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Smim19Ratmembrane located_inIEAUniProtKB-SubCell:SL-01621600115GO_REF:0000044UniProtGO_REF:0000044
Smim19Ratmembrane located_inIEAUniProtKB-KW:KW-04721600115GO_REF:0000043UniProtGO_REF:0000043

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Smim19Ratprotein binding enablesISORGD:16026601624291UniProtKB:O43681|UniProtKB:Q12797-6|UniProtKB:Q8N5M9|UniProtKB:Q9UHD9|UniProtKB:Q9UMX0 PMID:32296183RGDPMID:32296183


#
Reference Title
Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions


Smim19
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,245,838 - 76,266,786 (+)NCBIGRCr8
mRatBN7.21669,551,507 - 69,564,323 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1674,825,210 - 74,838,026 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,256,304 - 78,269,051 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01673,505,490 - 73,518,237 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01674,408,085 - 74,422,070 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01674,042,983 - 74,057,727 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41674,174,551 - 74,187,927 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1667,441,788 - 67,455,777 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
SMIM19
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38842,541,148 - 42,555,195 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl842,541,155 - 42,555,195 (+)EnsemblGRCh38hg38GRCh38
GRCh37842,396,291 - 42,410,338 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36842,515,913 - 42,527,280 (+)NCBINCBI36Build 36hg18NCBI36
Celera841,343,227 - 41,355,088 (+)NCBICelera
Cytogenetic Map8p11.21NCBI
HuRef840,918,830 - 40,930,711 (+)NCBIHuRef
CHM1_1842,443,194 - 42,455,036 (+)NCBICHM1_1
T2T-CHM13v2.0842,809,128 - 42,823,216 (+)NCBIT2T-CHM13v2.0
Smim19
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39822,952,630 - 22,966,850 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl822,952,630 - 22,966,898 (-)EnsemblGRCm39 Ensembl
GRCm38822,462,614 - 22,476,879 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl822,462,614 - 22,476,882 (-)EnsemblGRCm38mm10GRCm38
MGSCv37823,573,086 - 23,587,351 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36823,928,159 - 23,942,400 (-)NCBIMGSCv36mm8
Celera823,956,936 - 23,971,202 (-)NCBICelera
Cytogenetic Map8A2NCBI
cM Map811.42NCBI
Smim19
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955536377,517 - 387,978 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955536380,062 - 384,608 (-)NCBIChiLan1.0ChiLan1.0
SMIM19
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2760,994,382 - 61,007,444 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1836,710,528 - 36,723,858 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0841,785,396 - 41,799,520 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1839,229,768 - 39,241,096 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl839,229,944 - 39,241,096 (+)Ensemblpanpan1.1panPan2
SMIM19
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11623,152,852 - 23,165,554 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1623,153,968 - 23,165,771 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1623,657,421 - 23,670,128 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01624,903,611 - 24,916,347 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1624,903,253 - 24,916,545 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11623,272,644 - 23,285,352 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01623,837,734 - 23,850,442 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01623,888,480 - 23,901,198 (-)NCBIUU_Cfam_GSD_1.0
Smim19
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494346,208,343 - 46,220,379 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936785164,648 - 176,797 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936785165,612 - 176,784 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMIM19
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1711,549,937 - 11,566,898 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11711,549,907 - 11,566,898 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21712,814,047 - 12,831,050 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMIM19
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1840,534,621 - 40,546,232 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl840,534,910 - 40,546,647 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660521,227,418 - 1,239,048 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smim19
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624780716,907 - 726,607 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Smim19
106 total Variants

Predicted Target Of
Summary Value
Count of predictions:78
Count of miRNA genes:65
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000036506
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.


1 to 10 of 13 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)166853271675029966Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat

1 to 10 of 13 rows
RH139840  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21669,565,188 - 69,565,401 (+)MAPPERmRatBN7.2
Rnor_6.01674,421,801 - 74,422,013NCBIRnor6.0
Rnor_5.01674,056,682 - 74,056,894UniSTSRnor5.0
RGSC_v3.41674,188,162 - 74,188,374UniSTSRGSC3.4
Celera1667,455,508 - 67,455,720UniSTS
RH 3.4 Map16635.1UniSTS




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



Ensembl Acc Id: ENSRNOT00000036506   ⟹   ENSRNOP00000031728
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)Ensembl
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)Ensembl
RefSeq Acc Id: NM_001399377   ⟹   NP_001386306
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81676,253,970 - 76,266,786 (+)NCBI
mRatBN7.21669,551,507 - 69,564,323 (+)NCBI
RefSeq Acc Id: XM_063274967   ⟹   XP_063131037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81676,245,838 - 76,257,132 (+)NCBI
Protein RefSeqs NP_001386306 (Get FASTA)   NCBI Sequence Viewer  
  XP_063131037 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM09001 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000031728
  ENSRNOP00000031728.7
Ensembl Acc Id: ENSRNOP00000031728   ⟸   ENSRNOT00000036506
RefSeq Acc Id: NP_001386306   ⟸   NM_001399377
- UniProtKB: F1LVG4 (UniProtKB/TrEMBL),   A6IW71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063131037   ⟸   XM_063274967
- Peptide Label: isoform X1

Name Modeler Protein Id AA Range Protein Structure
AF-F1LVG4-F1-model_v2 AlphaFold F1LVG4 1-107 view protein structure


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

RGD ID:13700197
Promoter ID:EPDNEW_R10712
Type:initiation region
Name:Smim19_1
Description:small integral membrane protein 19
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_6.01674,408,114 - 74,408,174EPDNEW


1 to 13 of 13 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-10874 BioCyc
Ensembl Genes ENSRNOG00000024930 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036506 ENTREZGENE
  ENSRNOT00000036506.7 UniProtKB/TrEMBL
InterPro SMIM19 UniProtKB/TrEMBL
NCBI Gene 100362321 ENTREZGENE
PANTHER PTHR31888 UniProtKB/TrEMBL
  SMALL INTEGRAL MEMBRANE PROTEIN 19 UniProtKB/TrEMBL
Pfam UPF0697 UniProtKB/TrEMBL
PhenoGen Smim19 PhenoGen
RatGTEx ENSRNOG00000024930 RatGTEx
UniProt A6IW71 ENTREZGENE, UniProtKB/TrEMBL
  F1LVG4 ENTREZGENE, UniProtKB/TrEMBL
1 to 13 of 13 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-20 Smim19  small integral membrane protein 19  LOC100362321  rCG43335-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-05 LOC100362321  rCG43335-like      Symbol and Name status set to provisional 70820 PROVISIONAL