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
Black 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 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1676,253,443 - 76,267,911 (+)EnsemblGRCr8
mRatBN7.21669,551,507 - 69,564,323 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1674,825,210 - 74,838,026 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,256,304 - 78,269,051 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01673,505,490 - 73,518,237 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1676,187,788 - 76,200,580 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1677,560,919 - 77,573,711 (+)NCBILyon_Normotensive
Lyon_Hypertensive1678,061,896 - 78,074,688 (+)NCBILyon_Hypertensive
F344_StmMcwi1674,216,554 - 74,229,286 (+)NCBIF344_StmMcwi
Rnor_6.01674,408,085 - 74,422,070 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)Ensemblrn6Rnor6.0
Rnor_5.01674,042,983 - 74,057,727 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41674,174,551 - 74,187,927 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1667,441,788 - 67,455,777 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IEA)

Molecular Function

References

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

Genomics

Comparative Map Data
Smim19
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81676,245,838 - 76,266,786 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1676,253,443 - 76,267,911 (+)EnsemblGRCr8
mRatBN7.21669,551,507 - 69,564,323 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1674,825,210 - 74,838,026 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01678,256,304 - 78,269,051 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01673,505,490 - 73,518,237 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1676,187,788 - 76,200,580 (+)NCBIDahl_SR_JrHsd
Lyon_Normotensive1677,560,919 - 77,573,711 (+)NCBILyon_Normotensive
Lyon_Hypertensive1678,061,896 - 78,074,688 (+)NCBILyon_Hypertensive
F344_StmMcwi1674,216,554 - 74,229,286 (+)NCBIF344_StmMcwi
Rnor_6.01674,408,085 - 74,422,070 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)Ensemblrn6Rnor6.0
Rnor_5.01674,042,983 - 74,057,727 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41674,174,551 - 74,187,927 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
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 (+)Ensemblhg38GRCh38
GRCh37842,396,291 - 42,410,338 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36842,515,913 - 42,527,280 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38822,462,614 - 22,476,879 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl822,462,614 - 22,476,882 (-)Ensemblmm10GRCm38
MGSCv37823,573,086 - 23,587,351 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1623,657,421 - 23,670,128 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01624,903,611 - 24,916,347 (-)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (-)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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 1.0HetGla 1.0hetGla2
Smim19
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11363,953,386 - 63,966,247 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Smim19
112 total Variants
miRNA Target Status (No longer updated)

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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164445512389455123Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165942871491442908Rat
1298529Arunc1Aerobic running capacity QTL 14exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)163439829479398294Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)163692878281928782Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)163188527176885271Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164445512389455123Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)164199206486992064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165942871491442908Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165942871491442908Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164909919691442908Rat
1298527Arunc2Aerobic running capacity QTL 22.9exercise endurance trait (VT:0002332)longest distance run on treadmill (CMO:0001406)167523528581732231Rat
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)163236104377361043Rat

Markers in Region
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


Expression

RNA-SEQ Expression

adipose tissue
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
10 16 12 150 248 91 90 65 139 59 22 485 331 11 227 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000036506   ⟹   ENSRNOP00000031728
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1676,256,379 - 76,267,911 (+)Ensembl
mRatBN7.2 Ensembl1669,553,916 - 69,567,245 (+)Ensembl
Rnor_6.0 Ensembl1674,408,183 - 74,422,215 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000133402   ⟹   ENSRNOP00000103132
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1676,253,443 - 76,267,911 (+)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
Dahl_SR_JrHsd1676,187,788 - 76,200,580 (+)NCBI
Lyon_Normotensive1677,560,919 - 77,573,711 (+)NCBI
Lyon_Hypertensive1678,061,896 - 78,074,688 (+)NCBI
F344_StmMcwi1674,216,554 - 74,229,286 (+)NCBI
RefSeq Acc Id: XM_063274967   ⟹   XP_063131037
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81676,245,838 - 76,257,132 (+)NCBI
Protein Sequences
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
  ENSRNOP00000103132.1
Ensembl Acc Id: ENSRNOP00000031728   ⟸   ENSRNOT00000036506
RefSeq Acc Id: NP_001386306   ⟸   NM_001399377
- UniProtKB: A6IW71 (UniProtKB/TrEMBL),   F1LVG4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063131037   ⟸   XM_063274967
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000103132   ⟸   ENSRNOT00000133402

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

Transcriptome

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

Promoters
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2318364 AgrOrtholog
BioCyc Gene G2FUF-10874 BioCyc
Ensembl Genes ENSRNOG00000024930 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000036506 ENTREZGENE
  ENSRNOT00000036506.8 UniProtKB/TrEMBL
  ENSRNOT00000133402.1 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 A0ABK0L2T6_RAT UniProtKB/TrEMBL
  A6IW71 ENTREZGENE, UniProtKB/TrEMBL
  F1LVG4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
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