|
|
metallothionein 1D, pseudogene
| |
Aliases
for MT1DP gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA
Quality score for the ORGUL clustered with this gene is 8
| Aliases |
|---|
| Metallothionein 1D, Pseudogene1 2 | | MTM1 2 3 |
| External Ids: | HGNC: 73961 | Entrez Gene: 3263432 | Ensembl: ENSG000002053617 | UniProtKB: A1L3X43 | | ORGUL members: | |
|---|
| NONCODE:n375004 n375005 | |
Export aliases for MT1DP gene to outside databasesPrevious GC identifers: GC16U990039 GC16P055236 GC16P042547
|---|
Summaries
for MT1DP gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: MT1DP_HUMAN, A1L3X4Function: Metallothioneins have a high content of cysteine residues that bind various heavy metals (By similarity)
|
Genomic Views
for MT1DP 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 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000016.9 NC_018927.1 NT_010498.15
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the MT1DP gene promoter:
TBP p53 Sp1 Zic1
Other transcription factors
Search SABiosciences Chromatin IP Primers for MT1DP
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat MT1DP |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 16q13 Ensembl cytogenetic band: 16q12.2 HGNC cytogenetic band: 16q13MT1DP Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 16 GeneLoc Exon Structure GeneLoc location for GC16P056677: view genomic region
(about GC identifiers)
Start:
|
56,677,599 bp from pter |
End:
|
56,678,853 bp from pter |
Size:
|
1,255 bases |
Orientation:
|
plus strand |
ORGUL member locations:
Legend (see complete legend)
56677598 56678225 56678852 chr16
|
Proteins
for MT1DP gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
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
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: MT1DP_HUMAN, A1L3X4 (See
protein sequence)Recommended Name: Putative metallothionein MT1DP Size: 49 amino acids; 4983 Da
Caution: Could be the product of a pseudogene
Secondary accessions: Q86YX1Explore the universe of human proteins at neXtProt for MT1DP: NX_A1L3X4
MT1DP Protein expression data from MOPED and PaxDb: --
Human Recombinant Protein Products:
MT1DP Antibody Products:
Assay Products for MT1DP: |
Protein
Domains /
Families
for MT1DP gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
MT1DP for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry A1L3X4ProtoNet protein and cluster: A1L3X4 UniProtKB/Swiss-Prot: MT1DP_HUMAN, A1L3X4Similarity: Belongs to the metallothionein superfamily. Type 1 family |
Function
for MT1DP gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
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,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: MT1DP_HUMAN, A1L3X4Function: Metallothioneins have a high content of cysteine residues that bind various heavy metals (By similarity) Genatlas biochemistry entry for MT1DP:metallothionein 1DP cluster
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0046872 | metal ion binding |
IEA | -- |
MT1DP for ontologies About GeneDecksing
|
Pathways & Interactions
for MT1DP gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
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 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for MT1DP
|
Drugs & Compounds
for MT1DP gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for MT1DP
Search CenterWatch for drugs/clinical trials and news about MT1DP 
|
Transcripts
for MT1DP gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
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,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for MT1DP gene: NM_175620.1 Unigene Cluster for MT1DP: Metallothionein 1D, pseudogene Hs.679600 [show with all ESTs]Unigene Representative Sequence: BG1813362 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000463480(uc010cci.3 uc010vhf.2) ENST00000486551
Additional cDNA sequence: AF348999.2 BC130315.1 BC130317.1 NR_003658.2 NR_027781.1 4 DOTS entries: DT.100696941 DT.120684820 DT.85100940 DT.92417668
GeneLoc Exon Structure
|
Expression
for MT1DP gene
(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
| MT1DP expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
SOURCE GeneReport for Unigene cluster: Hs.679600
SABiosciences Custom PCR Arrays for MT1DP
Primer
Products: |  | Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat MT1DP | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat MT1DP | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat MT1DP |
Orthologs
for MT1DP gene
(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
|
--
ENSEMBL Gene Tree for MT1DP (if available)
TreeFam Gene Tree for MT1DP (if available) |
Paralogs
for MT1DP gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for MT1DP gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, 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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 16 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for MT1DP (56677599 - 56678853 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for MT1DP: -- | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for MT1DP gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
MT1DP for disorders About GeneDecksing
3  diseases for MT1DP: About MalaCardssick building syndrome centronuclear myopathy myopathy
Export disorders for MT1DP gene to outside databases
|
Publications
for MT1DP gene (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 MT1DP gene integrated from 9 sources:
(articles sorted by number of sources associating them with MT1DP) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Structure and tissue-specific expression of the human metallothionein IB gene. (PubMed id 3785191)1, 3 Heguy A....Karin M. (1986)
- Structural and functional analysis of the human metallothionein-IA gene: differential induction by metal ions and glucocorticoids. (PubMed id 6327055)1, 3 Richards R.I....Karin M. (1984)
- Human metallothionein genes are clustered on chromosome 16. (PubMed id 6089206)1, 3 Karin M....Shows T.B. (1984)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- Creation of genome-wide protein expression libraries using random activation of gene expression. (PubMed id 11329013)1 Harrington J.J.... Ducar M. (2001)
- Human metallothionein genes: structure of the functional locus at 16q13. (PubMed id 2286373)1 West A.K....Richards R.I. (1990)
- Metallothionein gene cluster is split by chromosome 16 rearrangements in myelomonocytic leukaemia. (PubMed id 3856101)1 Le Beau M.M....Rowley J.D. (1985)
|
External Searches for MT1DP gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing MT1DP gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing MT1DP gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing MT1DP gene(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
|
| Name | Description |
| PharmGKB entry for MT1DP | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for MT1DP gene:
Search GeneIP for patents involving MT1DP
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for MT1DP gene(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, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, 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
About This Section
|
 | |
 |
| | | | |
 |
 |
|  | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat MT1DP | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing MT1DP | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat MT1DP | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat MT1DP | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat MT1DP | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat MT1DP |
| |
 |  |  |  | |
| | | | Search Tocris compounds for MT1DP |
| |  |  |  |  | | | | |
 |
 |
 |
 | | | | |  |  |  | | | | Search ThermoFisher Antibodies for MT1DP |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat MT1DP |
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Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013
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