SMIM1 (small integral membrane protein 1 (Vel blood group)) - Rat Genome Database

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Gene: SMIM1 (small integral membrane protein 1 (Vel blood group)) Sus scrofa
Analyze
Symbol: SMIM1
Name: small integral membrane protein 1 (Vel blood group)
RGD ID: 14289734
Description: ENCODES a protein that exhibits protein homodimerization activity (inferred); ASSOCIATED WITH chromosome 1p36 deletion syndrome (ortholog); Ehlers-Danlos syndrome spondylodysplastic type 2 (ortholog); genetic disease (ortholog); FOUND IN cell surface (inferred); membrane (inferred); plasma membrane (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: small integral membrane protein 1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl665,255,823 - 65,259,126 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1665,255,792 - 65,259,129 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2660,005,916 - 60,006,830 (-)NCBISscrofa10.2Sscrofa10.2susScr3
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
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
SMIM1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl665,255,823 - 65,259,126 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1665,255,792 - 65,259,129 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2660,005,916 - 60,006,830 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMIM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813,772,749 - 3,775,956 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13,772,749 - 3,775,982 (+)EnsemblGRCh38hg38GRCh38
GRCh3713,689,313 - 3,692,520 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3613,679,249 - 3,682,406 (+)NCBINCBI36Build 36hg18NCBI36
Celera12,943,389 - 2,946,586 (+)NCBICelera
Cytogenetic Map1p36.32NCBI
HuRef12,984,541 - 2,987,738 (+)NCBIHuRef
CHM1_113,676,374 - 3,679,562 (+)NCBICHM1_1
T2T-CHM13v2.013,284,345 - 3,287,549 (+)NCBIT2T-CHM13v2.0
Smim1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394154,104,927 - 154,110,550 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4154,104,927 - 154,110,687 (-)EnsemblGRCm39 Ensembl
GRCm384154,020,470 - 154,026,085 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4154,020,470 - 154,026,230 (-)EnsemblGRCm38mm10GRCm38
MGSCv374153,394,579 - 153,400,153 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364152,867,111 - 152,869,950 (-)NCBIMGSCv36mm8
Celera4156,307,940 - 156,313,514 (-)NCBICelera
Cytogenetic Map4E2NCBI
cM Map483.79NCBI
Smim1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85169,861,751 - 169,867,070 (-)NCBIGRCr8
mRatBN7.25164,579,327 - 164,584,650 (-)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx5167,285,934 - 167,288,625 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05169,107,344 - 169,110,035 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05169,069,792 - 169,072,483 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05171,306,836 - 171,312,109 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5171,309,335 - 171,312,026 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05174,798,370 - 174,803,636 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45170,809,728 - 170,812,420 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5162,793,811 - 162,796,502 (-)NCBICelera
Cytogenetic Map5q36NCBI
Smim1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554867,889,510 - 7,894,567 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554867,889,510 - 7,895,281 (-)NCBIChiLan1.0ChiLan1.0
SMIM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21224,532,927 - 224,536,256 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11223,176,956 - 223,180,285 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012,444,126 - 2,447,455 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113,565,845 - 3,569,137 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13,565,845 - 3,569,137 (+)Ensemblpanpan1.1panPan2
SMIM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1558,281,962 - 58,285,071 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl558,282,347 - 58,284,616 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha558,292,383 - 58,295,501 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0558,489,482 - 58,492,600 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl558,489,876 - 58,492,145 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1558,497,226 - 58,500,344 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0558,366,170 - 58,369,288 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0558,756,393 - 58,759,511 (+)NCBIUU_Cfam_GSD_1.0
Smim1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505829,322,159 - 29,324,704 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936737140,702 - 143,791 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936737141,024 - 141,851 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMIM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120127,900,506 - 127,904,242 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20127,900,976 - 127,903,371 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605432,111,906 - 32,115,692 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smim1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248186,752,595 - 6,753,126 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248186,749,893 - 6,755,460 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SMIM1
45 total Variants

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 hemolymphoid system nervous system renal system reproductive system
High
Medium
Low 1 2 2 1
Below cutoff 3 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000050028   ⟹   ENSSSCP00000038395
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl665,255,823 - 65,259,126 (+)Ensembl
RefSeq Acc Id: XM_021095223   ⟹   XP_020950882
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1665,255,792 - 65,259,129 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020950882   ⟸   XM_021095223
- UniProtKB: A0A8D0S118 (UniProtKB/TrEMBL),   A0A287A3R5 (UniProtKB/TrEMBL),   A0A4X1WA19 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000038395   ⟸   ENSSSCT00000050028


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000036305 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00015064144 UniProtKB/TrEMBL
  ENSSSCG00025042460 UniProtKB/TrEMBL
  ENSSSCG00030010503 UniProtKB/TrEMBL
  ENSSSCG00035072356 UniProtKB/TrEMBL
  ENSSSCG00040016369 UniProtKB/TrEMBL
  ENSSSCG00045025038 UniProtKB/TrEMBL
  ENSSSCG00050013276 UniProtKB/TrEMBL
  ENSSSCG00055003479 UniProtKB/TrEMBL
  ENSSSCG00060048767 UniProtKB/TrEMBL
  ENSSSCG00065054328 UniProtKB/TrEMBL
  ENSSSCG00070029588 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000050028 ENTREZGENE
  ENSSSCT00000050028.1 UniProtKB/TrEMBL
  ENSSSCT00015085828.1 UniProtKB/TrEMBL
  ENSSSCT00025057534.1 UniProtKB/TrEMBL
  ENSSSCT00030014403.1 UniProtKB/TrEMBL
  ENSSSCT00035097897.1 UniProtKB/TrEMBL
  ENSSSCT00040021991.1 UniProtKB/TrEMBL
  ENSSSCT00045042690.1 UniProtKB/TrEMBL
  ENSSSCT00050017919.1 UniProtKB/TrEMBL
  ENSSSCT00055006816.1 UniProtKB/TrEMBL
  ENSSSCT00060066236.1 UniProtKB/TrEMBL
  ENSSSCT00065074413.1 UniProtKB/TrEMBL
  ENSSSCT00070059471.1 UniProtKB/TrEMBL
InterPro SMIM1 UniProtKB/TrEMBL
NCBI Gene SMIM1 ENTREZGENE
PANTHER PTHR38503 UniProtKB/TrEMBL
  SMALL INTEGRAL MEMBRANE PROTEIN 1 UniProtKB/TrEMBL
Pfam DUF4731 UniProtKB/TrEMBL
UniProt A0A287A3R5 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1WA19 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0S118 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1PEK6_PIG UniProtKB/TrEMBL