Smim26 (small integral membrane protein 26) - Rat Genome Database

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Gene: Smim26 (small integral membrane protein 26) Rattus norvegicus
Analyze
Symbol: Smim26
Name: small integral membrane protein 26
RGD ID: 1566320
Description: Orthologous to human SMIM26 (small integral membrane protein 26); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical LOC296207; hypothetical protein LOC296207; LOC296207; RGD1566320; RGD1566320; uncharacterized protein LOC296207
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83152,443,397 - 152,445,102 (+)NCBIGRCr8
mRatBN7.23131,990,147 - 131,991,779 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3131,990,291 - 131,992,132 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3135,913,088 - 135,914,576 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03144,497,173 - 144,498,661 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03142,200,382 - 142,201,870 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03138,764,926 - 138,766,515 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3138,765,027 - 138,766,515 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03145,194,749 - 145,196,325 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43133,155,333 - 133,156,821 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3130,878,054 - 130,879,542 (+)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18614015  


Genomics

Comparative Map Data
Smim26
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83152,443,397 - 152,445,102 (+)NCBIGRCr8
mRatBN7.23131,990,147 - 131,991,779 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3131,990,291 - 131,992,132 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3135,913,088 - 135,914,576 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03144,497,173 - 144,498,661 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03142,200,382 - 142,201,870 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03138,764,926 - 138,766,515 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3138,765,027 - 138,766,515 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03145,194,749 - 145,196,325 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43133,155,333 - 133,156,821 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3130,878,054 - 130,879,542 (+)NCBICelera
Cytogenetic Map3q41NCBI
SMIM26
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382018,567,432 - 18,569,611 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2018,567,347 - 18,569,563 (+)EnsemblGRCh38hg38GRCh38
GRCh372018,548,076 - 18,550,255 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362018,490,635 - 18,498,255 (+)NCBINCBI36Build 36hg18NCBI36
Celera2018,622,141 - 18,624,272 (+)NCBICelera
Cytogenetic Map20p11.23NCBI
HuRef2018,509,443 - 18,511,804 (+)NCBIHuRef
CHM1_12018,548,109 - 18,550,240 (+)NCBICHM1_1
T2T-CHM13v2.02018,618,488 - 18,620,664 (+)NCBIT2T-CHM13v2.0
Smim26
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392144,435,985 - 144,437,286 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2144,435,974 - 144,437,286 (+)EnsemblGRCm39 Ensembl
GRCm382144,594,065 - 144,595,366 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2144,594,054 - 144,595,366 (+)EnsemblGRCm38mm10GRCm38
MGSCv372144,419,801 - 144,421,101 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362144,285,506 - 144,286,806 (+)NCBIMGSCv36mm8
Celera2145,780,507 - 145,781,807 (+)NCBICelera
Cytogenetic Map2G1NCBI
cM Map271.02NCBI
SMIM26
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22119,457,135 - 19,461,298 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12019,455,936 - 19,458,138 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02018,529,085 - 18,531,243 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12018,499,506 - 18,501,649 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2018,499,564 - 18,670,699 (+)Ensemblpanpan1.1panPan2
SMIM26
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1244,656,038 - 4,657,726 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl244,656,038 - 4,657,667 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha244,586,583 - 4,588,923 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0245,063,498 - 5,065,441 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl245,063,498 - 5,065,184 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1244,663,272 - 4,665,618 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0244,767,904 - 4,770,381 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0245,046,439 - 5,048,774 (-)NCBIUU_Cfam_GSD_1.0
Smim26
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640153,307,268 - 153,309,046 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364851,738,535 - 1,740,504 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
LOC100524915
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11726,804,722 - 26,807,347 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21730,294,322 - 30,296,944 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMIM26
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_0236660782,376,616 - 2,378,975 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Smim26
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:31
Interacting mature miRNAs:36
Transcripts:ENSRNOT00000055588
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
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1581546Pur13Proteinuria QTL 132.930.0335urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
631649Bp123Blood pressure QTL 1233.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)389772419134772419Rat
8694437Bw167Body weight QTL 16722.460.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)391797474136797474Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
724532Cm17Cardiac mass QTL 172heart mass (VT:0007028)calculated heart weight (CMO:0000073)395735366140735366Rat
1354611Despr2Despair related QTL 23.030.0028locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)397084464142084464Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1331758Bp207Blood pressure QTL 2072.848arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3112287552135181505Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)3115638168135181505Rat
1358204Insglur1Insulin/glucose ratio QTL 13.8blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)3115638168135181505Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat

Markers in Region
BF399964  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23131,991,834 - 131,991,960 (+)MAPPERmRatBN7.2
Rnor_6.03138,766,571 - 138,766,696NCBIRnor6.0
Rnor_5.03145,196,381 - 145,196,506UniSTSRnor5.0
RGSC_v3.43133,156,877 - 133,157,002UniSTSRGSC3.4
Celera3130,879,598 - 130,879,723UniSTS
RH 3.4 Map31182.8UniSTS
Cytogenetic Map3q41UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 42 57 41 18 41 8 11 74 35 41 11 8
Low 1 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000055588   ⟹   ENSRNOP00000052452
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3131,990,291 - 131,992,132 (+)Ensembl
Rnor_6.0 Ensembl3138,765,027 - 138,766,515 (+)Ensembl
RefSeq Acc Id: NM_001106520   ⟹   NP_001099990
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83152,443,614 - 152,445,102 (+)NCBI
mRatBN7.23131,990,291 - 131,991,779 (+)NCBI
Rnor_6.03138,765,027 - 138,766,515 (+)NCBI
Rnor_5.03145,194,749 - 145,196,325 (+)NCBI
RGSC_v3.43133,155,333 - 133,156,821 (+)RGD
Celera3130,878,054 - 130,879,542 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235125   ⟹   XP_006235187
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83152,443,397 - 152,444,943 (+)NCBI
mRatBN7.23131,990,147 - 131,991,628 (+)NCBI
Rnor_6.03138,764,926 - 138,766,363 (+)NCBI
Rnor_5.03145,194,749 - 145,196,325 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099990 (Get FASTA)   NCBI Sequence Viewer  
  XP_006235187 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL95153 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052452
  ENSRNOP00000052452.2
Reference Protein Sequences
RefSeq Acc Id: NP_001099990   ⟸   NM_001106520
- UniProtKB: D4ABV0 (UniProtKB/TrEMBL),   A6K766 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235187   ⟸   XM_006235125
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000052452   ⟸   ENSRNOT00000055588

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABV0-F1-model_v2 AlphaFold D4ABV0 1-107 view protein structure

Transcriptome

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

Promoters
RGD ID:13692486
Promoter ID:EPDNEW_R3011
Type:multiple initiation site
Name:Smim26_1
Description:small integral membrane protein 26
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_6.03138,765,043 - 138,765,103EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566320 AgrOrtholog
BioCyc Gene G2FUF-47594 BioCyc
Ensembl Genes ENSRNOG00000036971 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055588 ENTREZGENE
  ENSRNOT00000055588.3 UniProtKB/TrEMBL
InterPro SMIM26 UniProtKB/TrEMBL
KEGG Report rno:296207 UniProtKB/TrEMBL
NCBI Gene 296207 ENTREZGENE
PANTHER PTHR40386 UniProtKB/TrEMBL
  SMALL INTEGRAL MEMBRANE PROTEIN 26 UniProtKB/TrEMBL
PhenoGen Smim26 PhenoGen
RatGTEx ENSRNOG00000036971 RatGTEx
UniProt A6K766 ENTREZGENE, UniProtKB/TrEMBL
  D4ABV0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-24 Smim26  small integral membrane protein 26  RGD1566320  RGD1566320  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1566320  RGD1566320   RGD1566320_predicted  RGD1566320 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1566320_predicted  RGD1566320 (predicted)  LOC296207  hypothetical LOC296207  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC296207  hypothetical LOC296207      Symbol and Name status set to provisional 70820 PROVISIONAL