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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SMDT1 Gene

protein-coding   GIFtS: 34
GCID: GC22P042476

Single-Pass Membrane Protein With Aspartate-Rich Tail 1

(Previous name: chromosome 22 open reading frame 32)
(Previous symbol: C22orf32)
  Search for SMDT1
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Single-Pass Membrane Protein With Aspartate-Rich Tail 11 2     dJ186O1.12
C22orf321 2 3     Single-Pass Membrane Protein With Aspartate-Rich Tail 1, Mitochondrial2
Chromosome 22 Open Reading Frame 321     UPF0466 Protein C22orf32, Mitochondrial2
DDDD2     

External Ids:    HGNC: 250551   Entrez Gene: 916892   Ensembl: ENSG000001831727   UniProtKB: Q9H4I93   

Export aliases for SMDT1 gene to outside databases


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SMDT1 Gene: 
SMDT1 (single-pass membrane protein with aspartate-rich tail 1) is a protein-coding gene.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000022.10  NT_011520.12  NC_018933.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SMDT1
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSMDT1 promoter sequence
   Search SABiosciences Chromatin IP Primers for SMDT1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SMDT1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 22q13.2   Ensembl cytogenetic band:  22q13.2   HGNC cytogenetic band: 22q13.2

SMDT1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SMDT1 gene location

GeneLoc information about chromosome 22         GeneLoc Exon Structure

GeneLoc location for GC22P042476:  view genomic region     (about GC identifiers)

Start:
42,475,695 bp from pter      End:
42,520,105 bp from pter
Size:
44,411 bases      Orientation:
plus strand

1 alternative location:
Chr22+,NW_003315971 1-2,325     

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SMDT1_HUMAN, Q9H4I9 (See protein sequence)
Recommended Name: Single-pass membrane protein with aspartate-rich tail 1, mitochondrial precursor  
Size: 107 amino acids; 11441 Da
Subcellular location: Mitochondrion (Potential). Membrane; Single-pass membrane protein (Potential)
Secondary accessions: B2R5D1 Q8TAB9

Explore the universe of human proteins at neXtProt for SMDT1: NX_Q9H4I9

Explore proteomics data for SMDT1 at MOPED 

SMDT1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

SMDT1 Protein Expression

REFSEQ proteins: NP_201575.3  
ENSEMBL proteins: 
 ENSP00000402623   ENSP00000327467  

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Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005739mitochondrion IEA--
GO:0016021integral to membrane IEA--

SMDT1 for ontologies           About GeneDecksing



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Browse CLIAs at Cloud-Clone Corp.


(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
1 InterPro protein domain:
 IPR018782 UPF0466

Graphical View of Domain Structure for InterPro Entry Q9H4I9

ProtoNet protein and cluster: Q9H4I9

UniProtKB/Swiss-Prot: SMDT1_HUMAN, Q9H4I9
Similarity: Belongs to the SMDT1 family


SMDT1 for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Phenotypes:
     1 GenomeRNAi human phenotype for SMDT1:
 Decreased viability with pacli 

     1 MGI phenotypic allele for 1500032L24Rik (no phenotypes)

SMDT1 for phenotypes           About GeneDecksing

Animal Models:
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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SMDT1

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for SMDT1

Search CenterWatch for drugs/clinical trials and news about SMDT1

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for SMDT1 gene: 
NM_033318.4  

Unigene Cluster for SMDT1:

Single-pass membrane protein with aspartate-rich tail 1
Hs.306083  [show with all ESTs]
Unigene Representative Sequence: NM_033318
4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000422252 ENST00000331479(uc003bca.3) ENST00000484235 ENST00000547929

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Inhib. RNA
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Additional mRNA sequence: 

AK312142.1 AL449243.1 BC024237.2 CR456453.1 

9 DOTS entries:

DT.415825  DT.95241308  DT.95375085  DT.100810411  DT.102836323  DT.120644859  DT.95253705  DT.91757809 
DT.99961342 

24/262 AceView cDNA sequences (see all 262):

BM665715 BF975361 AI200035 AK095636 BX103385 AI298371 CR597807 F05371 
AL449243 BM705258 AW043630 AJ713576 BM767050 CR456453 BU736824 BX347790 
BU161537 BQ184354 AI493681 AA988287 AI216109 AI609596 BU786271 BM704386 

GeneLoc Exon Structure

3 Alternative Splicing Database (ASD) splice patterns (SP) for SMDT1    About this scheme

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b
SP1:              -     -               
SP2:                    -               
SP3:                                    


ECgene alternative splicing isoforms for SMDT1

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --


See SMDT1 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SMDT1

SOURCE GeneReport for Unigene cluster: Hs.306083
    SABiosciences Custom PCR Arrays for SMDT1
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SMDT1

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals.

Orthologs for SMDT1 gene from 6/14 species (see all 14)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia 1500032L24Rik1 , 5 RIKEN cDNA 1500032L24 gene1, 5 84.42(n)1
81.31(a)1
  15 (38.56 cM)5
690291  NM_026914.11  NP_081190.11 
 823389595 
chicken
(Gallus gallus)
Aves C1H22orf321 chromosome 1 open reading frame, human C22orf32 67.75(n)
77.17(a)
  770755  XM_001233648.2  XP_001233649.1 
lizard
(Anolis carolinensis)
Reptilia C22ORF326
Uncharacterized protein
62(a)
1 ↔ 1
5(27093313-27095283)
African clawed frog
(Xenopus laevis)
Amphibia 480375402   -- 75.24(n)    48037540 
zebrafish
(Danio rerio)
Actinopterygii Dr.294722 Transcribed sequence with weak similarity to protein more 79.9(n)    CK395719.1 
fruit fly
(Drosophila melanogaster)
Insecta CG176806
--
45(a)
1 ↔ 1
2R(14034802-14035499)


ENSEMBL Gene Tree for SMDT1 (if available)
TreeFam Gene Tree for SMDT1 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
  --

(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/107 SNPs in SMDT1 are shown (see all 107)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 22 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
VAR_0346284
----see VAR_0346282 R G mis40--------
rs1916015061,2
--42475948(+) GCCCAA/GACCGG 2 K R mis10--------
rs1825383231,2
C--42475971(+) TCCTCC/TTGGAG 1 -- int10--------
rs1857740811,2
C--42476004(+) AATCAC/TTGTGG 1 -- int10--------
rs1897371551,2
--42476224(+) CTGGAA/GTCAGA 1 -- int10--------
rs1181425711,2
F--42476307(+) TGAAAT/AATGAA 1 -- int11Minor allele frequency- A:0.01NA 120
rs738879201,2
C,F--42476415(+) TAGATG/ATGCAG 1 -- int12Minor allele frequency- A:0.07WA 120
rs1475776641,2
--42476429(+) ATTATG/TACAAT 1 -- int10--------
rs1824020521,2
--42476553(+) TTTTTC/GCAACA 1 -- int10--------
rs1887161841,2
--42476595(+) GGGAAA/TACGGA 1 -- int10--------

HapMap Linkage Disequilibrium report for SMDT1 (42475695 - 42520105 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for SMDT1: --
SABiosciences Cancer Mutation PCR Assays
SeqTarget long-range PCR primers for resequencing SMDT1
DNA2.0 Custom Variant and Variant Library Synthesis for SMDT1

(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
  --

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for SMDT1 gene integrated from 9 sources:
(articles sorted by number of sources associating them with SMDT1)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
  3. Genetic variants in nuclear-encoded mitochondrial gen es influence AIDS progression. (PubMed id 20877624)1 Hendrickson S.L....O'Brien S.J. (2010)
  4. A genome annotation-driven approach to cloning the human ORFeome. (PubMed id 15461802)1 Collins J.E.... Dunham I. (2004)
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
  6. Reevaluating human gene annotation: a second-generation analysis of chromosome 22. (PubMed id 12529303)2 Collins J.E.... Dunham I. (2003)
  7. The DNA sequence of human chromosome 22. (PubMed id 10591208)2 Dunham I....O'Brien K.P. (1999)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 91689 HGNC: 25055 AceView: LOC91689 Ensembl:ENSG00000183172 euGenes: HUgn91689
ECgene: SMDT1 H-InvDB: SMDT1

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for SMDT1 Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for SMDT1 gene:
Search GeneIP for patents involving SMDT1

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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 Browse Proteins at Cloud-Clone Corp.
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 SwitchGear 3'UTR luciferase reporter plasmids for SMDT1
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 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SMDT1
 inGenious Targeting Laboratory - Custom generated mouse model solutions for SMDT1
 inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SMDT1
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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(GIFtS: 73)
transforming growth factor, beta 1
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