Smim8 (small integral membrane protein 8) - Rat Genome Database

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Gene: Smim8 (small integral membrane protein 8) Rattus norvegicus
Analyze
Symbol: Smim8
Name: small integral membrane protein 8
RGD ID: 1305158
Description: Predicted to be integral component of membrane. Orthologous to human SMIM8 (small integral membrane protein 8); INTERACTS WITH (+)-schisandrin B; cadmium dichloride; gentamycin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC297971; LOC297971; RGD1305158; similar to RIKEN cDNA 1810030N24; uncharacterized protein LOC297971
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2549,336,617 - 49,345,625 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl549,336,617 - 49,345,441 (-)Ensembl
Rnor_6.0550,230,617 - 50,239,651 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,230,619 - 50,239,458 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0554,799,571 - 54,808,583 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4551,387,269 - 51,396,269 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1551,387,753 - 51,389,891 (-)NCBI
Celera548,083,152 - 48,092,156 (-)NCBICelera
Cytogenetic Map5q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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:12477932  


Genomics

Comparative Map Data
Smim8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2549,336,617 - 49,345,625 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl549,336,617 - 49,345,441 (-)Ensembl
Rnor_6.0550,230,617 - 50,239,651 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl550,230,619 - 50,239,458 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0554,799,571 - 54,808,583 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4551,387,269 - 51,396,269 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1551,387,753 - 51,389,891 (-)NCBI
Celera548,083,152 - 48,092,156 (-)NCBICelera
Cytogenetic Map5q21NCBI
SMIM8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38687,322,588 - 87,342,329 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl687,322,583 - 87,399,749 (+)EnsemblGRCh38hg38GRCh38
GRCh37688,032,306 - 88,052,047 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36688,089,025 - 88,108,762 (+)NCBINCBI36hg18NCBI36
Build 34688,103,443 - 88,108,193NCBI
Celera688,450,980 - 88,470,715 (+)NCBI
Cytogenetic Map6q15NCBI
HuRef685,248,760 - 85,268,498 (+)NCBIHuRef
CHM1_1688,129,829 - 88,149,562 (+)NCBICHM1_1
T2T-CHM13v2.0688,531,398 - 88,551,191 (+)NCBI
Smim8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39434,768,664 - 34,778,398 (-)NCBIGRCm39mm39
GRCm39 Ensembl434,768,664 - 34,778,423 (-)Ensembl
GRCm38434,768,664 - 34,778,396 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl434,768,664 - 34,778,423 (-)EnsemblGRCm38mm10GRCm38
MGSCv37434,715,921 - 34,725,586 (-)NCBIGRCm37mm9NCBIm37
MGSCv36434,957,559 - 34,967,224 (-)NCBImm8
Celera434,492,856 - 34,502,531 (-)NCBICelera
Cytogenetic Map4A5NCBI
SMIM8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1688,475,495 - 88,493,123 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v0685,199,698 - 85,218,051 (+)NCBIMhudiblu_PPA_v0panPan3
SMIM8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11246,835,228 - 46,845,614 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1246,835,832 - 46,845,445 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1246,643,539 - 46,653,995 (+)NCBI
ROS_Cfam_1.01247,640,426 - 47,650,873 (+)NCBI
ROS_Cfam_1.0 Ensembl1247,640,463 - 47,652,337 (+)Ensembl
UMICH_Zoey_3.11246,933,105 - 46,943,543 (+)NCBI
UNSW_CanFamBas_1.01246,860,372 - 46,870,819 (+)NCBI
UU_Cfam_GSD_1.01247,049,790 - 47,060,236 (+)NCBI
Smim8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494681,958,401 - 81,971,964 (+)NCBI
SpeTri2.0NW_0049365104,491,692 - 4,512,400 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMIM8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl155,753,910 - 55,765,079 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1155,753,912 - 55,763,969 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2162,447,071 - 62,455,902 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMIM8
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11311,812,903 - 11,826,175 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1311,813,166 - 11,827,560 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666040188,070,512 - 188,084,169 (+)NCBIVero_WHO_p1.0
Smim8
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247997,030,326 - 7,031,897 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247997,029,153 - 7,040,532 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH127777  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2549,336,875 - 49,337,070 (+)MAPPERmRatBN7.2
Rnor_6.0550,230,872 - 50,231,066NCBIRnor6.0
Rnor_5.0554,799,826 - 54,800,020UniSTSRnor5.0
RGSC_v3.4551,387,520 - 51,387,714UniSTSRGSC3.4
Celera548,083,407 - 48,083,601UniSTS
RH 3.4 Map5268.5UniSTS
Cytogenetic Map5q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1302786Kidm8Kidney mass QTL 828.15kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)53321566578215665Rat
1576317Eutr2Estrogen induced uterine response QTL 20.01uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)534730116104251008Rat
2316959Gluco59Glucose level QTL 594.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)534944474113558310Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)53518915368564008Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1331773Scl26Serum cholesterol level QTL 263.065blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)54372665686724018Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:32
Count of miRNA genes:28
Interacting mature miRNAs:30
Transcripts:ENSRNOT00000035840
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.


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 3 34 45 37 19 37 6 8 52 35 40 11 6
Low 9 12 4 4 2 3 22 1 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001106644 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001201373 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001201374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001201375 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001201376 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001359878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_153367 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006237988 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593235 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017593236 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039109437 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC167112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DY544415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM105726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM134958 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226097 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000161 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000035840   ⟹   ENSRNOP00000031561
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl550,230,619 - 50,239,458 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000080899   ⟹   ENSRNOP00000068743
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl550,230,633 - 50,239,437 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087057   ⟹   ENSRNOP00000073607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl550,231,861 - 50,239,419 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089172   ⟹   ENSRNOP00000071723
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl549,336,617 - 49,345,441 (-)Ensembl
Rnor_6.0 Ensembl550,230,633 - 50,239,431 (-)Ensembl
RefSeq Acc Id: NM_001201374   ⟹   NP_001188303
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,617 - 49,345,441 (-)NCBI
Rnor_6.0550,230,617 - 50,239,426 (-)NCBI
Rnor_5.0554,799,571 - 54,808,583 (-)NCBI
Celera548,083,152 - 48,091,961 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001201375   ⟹   NP_001188304
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,617 - 49,345,441 (-)NCBI
Rnor_6.0550,230,617 - 50,239,431 (-)NCBI
Rnor_5.0554,799,571 - 54,808,583 (-)NCBI
Celera548,083,152 - 48,091,966 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001359878   ⟹   NP_001346807
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,617 - 49,345,625 (-)NCBI
RefSeq Acc Id: NR_153367
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,617 - 49,345,441 (-)NCBI
RefSeq Acc Id: XM_006237987   ⟹   XP_006238049
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,621 - 49,345,614 (-)NCBI
Rnor_6.0550,230,617 - 50,239,649 (-)NCBI
Rnor_5.0554,799,571 - 54,808,583 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109437   ⟹   XP_038965365
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2549,336,621 - 49,342,890 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001188304   ⟸   NM_001201375
- UniProtKB: G3V8Z7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001188303   ⟸   NM_001201374
- UniProtKB: G3V8Z7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238049   ⟸   XM_006237987
- Peptide Label: isoform X1
- UniProtKB: G3V8Z7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068743   ⟸   ENSRNOT00000080899
RefSeq Acc Id: ENSRNOP00000071723   ⟸   ENSRNOT00000089172
RefSeq Acc Id: ENSRNOP00000031561   ⟸   ENSRNOT00000035840
RefSeq Acc Id: ENSRNOP00000073607   ⟸   ENSRNOT00000087057
RefSeq Acc Id: NP_001346807   ⟸   NM_001359878
RefSeq Acc Id: XP_038965365   ⟸   XM_039109437
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V8Z7-F1-model_v2 AlphaFold G3V8Z7 1-97 view protein structure

Transcriptome

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

Promoters
RGD ID:13693622
Promoter ID:EPDNEW_R4147
Type:initiation region
Name:Smim8_1
Description:small integral membrane protein 8
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_6.0550,239,394 - 50,239,454EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
5 49338957 49338958 G A snv FHH/EurMcwi (2019), GK/FarMcwi (2019), HXB2/IpcvMcwi (2019), SHRSP/A3NCrl (2019), WKY/NCrl (2019), HXB20/IpcvMcwi (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305158 AgrOrtholog
BioCyc Gene G2FUF-41651 BioCyc
Ensembl Genes ENSRNOG00000023035 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071723 ENTREZGENE
  ENSRNOP00000071723.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000089172 ENTREZGENE
  ENSRNOT00000089172.2 UniProtKB/TrEMBL
InterPro UPF0708 UniProtKB/TrEMBL
KEGG Report rno:297971 UniProtKB/TrEMBL
NCBI Gene 297971 ENTREZGENE
PANTHER PTHR14274 UniProtKB/TrEMBL
Pfam DUF4500 UniProtKB/TrEMBL
PhenoGen Smim8 PhenoGen
UniProt B2RZD3_RAT UniProtKB/TrEMBL
  G3V8Z7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-30 Smim8  small integral membrane protein 8  RGD1305158  similar to RIKEN cDNA 1810030N24  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1305158  similar to RIKEN cDNA 1810030N24   RGD1305158_predicted  similar to RIKEN cDNA 1810030N24 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1305158_predicted  similar to RIKEN cDNA 1810030N24 (predicted)  LOC297971_predicted  similar to RIKEN cDNA 1810030N24 (predicted)  Symbol and Name status set to approved 1331353 APPROVED
2005-01-20 RGD1305158_predicted  similar to RIKEN cDNA 1810030N24 (predicted)  LOC297971_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC297971_predicted  similar to RIKEN cDNA 1810030N24 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL