SMDT1 (single-pass membrane protein with aspartate rich tail 1) - Rat Genome Database

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Gene: SMDT1 (single-pass membrane protein with aspartate rich tail 1) Canis lupus familiaris
Analyze
Symbol: SMDT1
Name: single-pass membrane protein with aspartate rich tail 1
RGD ID: 12369785
Description: ENCODES a protein that exhibits channel activator activity (ortholog); protein-macromolecule adaptor activity (ortholog); INVOLVED IN calcium import into the mitochondrion (ortholog); ASSOCIATED WITH adenylosuccinase lyase deficiency (ortholog); common variable immunodeficiency 4 (ortholog); Developmental Delay with Variable Intellectual Impairment and Behavioral Abnormalities (ortholog); FOUND IN mitochondrial inner membrane (ortholog); uniplex complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: C10H22orf32; essential MCU regulator, mitochondrial
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11023,293,713 - 23,296,889 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1023,293,714 - 23,296,888 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,227,800 - 23,230,977 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01024,038,245 - 24,041,411 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1024,038,246 - 24,041,410 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11023,755,857 - 23,759,060 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01024,076,697 - 24,079,862 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01024,250,678 - 24,253,844 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
SMDT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11023,293,713 - 23,296,889 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1023,293,714 - 23,296,888 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1023,227,800 - 23,230,977 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01024,038,245 - 24,041,411 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1024,038,246 - 24,041,410 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11023,755,857 - 23,759,060 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01024,076,697 - 24,079,862 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01024,250,678 - 24,253,844 (-)NCBIUU_Cfam_GSD_1.0
SMDT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382242,079,700 - 42,084,284 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2242,079,691 - 42,084,284 (+)EnsemblGRCh38hg38GRCh38
GRCh372242,475,704 - 42,480,288 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362240,805,645 - 40,810,234 (+)NCBINCBI36Build 36hg18NCBI36
Celera2226,281,901 - 26,286,490 (+)NCBICelera
Cytogenetic Map22q13.2NCBI
HuRef2225,441,882 - 25,446,475 (+)NCBIHuRef
CHM1_12242,435,814 - 42,440,407 (+)NCBICHM1_1
T2T-CHM13v2.02242,559,289 - 42,563,873 (+)NCBIT2T-CHM13v2.0
Smdt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391582,229,901 - 82,233,266 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1582,223,160 - 82,233,292 (+)EnsemblGRCm39 Ensembl
GRCm381582,346,046 - 82,349,062 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1582,338,959 - 82,349,091 (+)EnsemblGRCm38mm10GRCm38
MGSCv371582,176,476 - 82,179,492 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361582,173,810 - 82,176,826 (+)NCBIMGSCv36mm8
Celera1584,470,202 - 84,473,223 (+)NCBICelera
Cytogenetic Map15E1NCBI
cM Map1538.56NCBI
Smdt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr87115,742,240 - 115,745,323 (+)NCBIGRCr8
mRatBN7.27113,862,162 - 113,865,245 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl7113,860,611 - 113,865,226 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx7115,617,925 - 115,621,008 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.07117,841,444 - 117,844,527 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.07117,810,892 - 117,813,975 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.07123,578,677 - 123,581,925 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,578,878 - 123,580,839 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07123,563,411 - 123,566,644 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47120,721,790 - 120,724,935 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.17120,753,567 - 120,759,164 (+)NCBI
Celera7110,176,835 - 110,180,083 (+)NCBICelera
Cytogenetic Map7q34NCBI
Smdt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541327,480,938 - 27,485,729 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541327,480,938 - 27,485,729 (+)NCBIChiLan1.0ChiLan1.0
SMDT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22351,910,224 - 51,914,019 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12254,609,503 - 54,614,118 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02222,973,088 - 22,977,702 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12241,057,322 - 41,061,031 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2241,057,316 - 41,061,031 (+)Ensemblpanpan1.1panPan2
Smdt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049456,920,620 - 6,924,292 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493671855,885 - 59,543 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493671855,879 - 59,547 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMDT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl56,568,080 - 6,571,234 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.156,568,430 - 6,571,370 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.253,986,359 - 3,989,335 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMDT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11924,616,590 - 24,620,294 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1924,616,523 - 24,618,997 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666045100,775,217 - 100,778,909 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smdt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247526,665,433 - 6,669,045 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247526,665,433 - 6,668,956 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SMDT1
40 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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000001519   ⟹   ENSCAFP00000001396
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1023,293,714 - 23,296,888 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845026933   ⟹   ENSCAFP00845021201
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1024,038,246 - 24,041,410 (-)Ensembl
RefSeq Acc Id: XM_038488443   ⟹   XP_038344371
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11023,755,857 - 23,759,060 (-)NCBI
RefSeq Acc Id: XM_038550366   ⟹   XP_038406294
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01024,250,678 - 24,253,844 (-)NCBI
RefSeq Acc Id: XM_038614336   ⟹   XP_038470264
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01024,076,697 - 24,079,862 (-)NCBI
RefSeq Acc Id: XM_038679682   ⟹   XP_038535610
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01024,038,245 - 24,041,411 (-)NCBI
RefSeq Acc Id: XM_846940   ⟹   XP_852033
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11023,293,713 - 23,296,889 (-)NCBI
Dog10K_Boxer_Tasha1023,227,800 - 23,230,977 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_852033   ⟸   XM_846940
- UniProtKB: A0A8C0QT22 (UniProtKB/TrEMBL),   A0A8C0RSL9 (UniProtKB/TrEMBL),   A0A8I3NVN5 (UniProtKB/TrEMBL),   A0A8C0YYY3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000001396   ⟸   ENSCAFT00000001519
RefSeq Acc Id: XP_038344371   ⟸   XM_038488443
RefSeq Acc Id: XP_038470264   ⟸   XM_038614336
RefSeq Acc Id: XP_038535610   ⟸   XM_038679682
- UniProtKB: A0A8C0QT22 (UniProtKB/TrEMBL),   A0A8C0RSL9 (UniProtKB/TrEMBL),   A0A8I3NVN5 (UniProtKB/TrEMBL),   A0A8C0YYY3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038406294   ⟸   XM_038550366
- UniProtKB: A0A8C0QT22 (UniProtKB/TrEMBL),   A0A8C0RSL9 (UniProtKB/TrEMBL),   A0A8C0YYY3 (UniProtKB/TrEMBL),   A0A8I3NVN5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845021201   ⟸   ENSCAFT00845026933

Promoters
RGD ID:13684942
Promoter ID:EPDNEW_C3011
Type:initiation region
Name:SMDT1_1
Description:single-pass membrane protein with aspartate rich tail 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11023,296,871 - 23,296,931EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000000983 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030024435 UniProtKB/TrEMBL
  ENSCAFG00040015267 UniProtKB/TrEMBL
  ENSCAFG00845015069 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000001519.5 UniProtKB/TrEMBL
  ENSCAFT00030044941.1 UniProtKB/TrEMBL
  ENSCAFT00040028123.1 UniProtKB/TrEMBL
  ENSCAFT00845026933 ENTREZGENE
  ENSCAFT00845026933.1 UniProtKB/TrEMBL
InterPro MCU_reg UniProtKB/TrEMBL
KEGG Report cfa:609643 UniProtKB/TrEMBL
NCBI Gene SMDT1 ENTREZGENE
PANTHER ESSENTIAL MCU REGULATOR, MITOCHONDRIAL UniProtKB/TrEMBL
  PTHR33904 UniProtKB/TrEMBL
Pfam DDDD UniProtKB/TrEMBL
UniProt A0A8C0QT22 ENTREZGENE
  A0A8C0RSL9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0YYY3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NVN5 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:46553 ENTREZGENE