Human Gene ZMYM5 (uc010tcn.1) Description and Page Index
  Description: Homo sapiens zinc finger, MYM-type 5 (ZMYM5), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr13:20,397,624-20,437,776 Size: 40,153 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr13:20,398,617-20,426,320 Size: 27,704 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:20,397,624-20,437,776)mRNA (may differ from genome)Protein (669 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ZMYM5_HUMAN
DESCRIPTION: RecName: Full=Zinc finger MYM-type protein 5; AltName: Full=Zinc finger protein 198-like 1; AltName: Full=Zinc finger protein 237;
SUBCELLULAR LOCATION: Nucleus (Potential).
SIMILARITY: Contains 4 MYM-type zinc fingers.
SEQUENCE CAUTION: Sequence=AAF29022.1; Type=Frameshift; Positions=286, 322, 337;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.40 RPKM in Testis
Total median expression: 241.47 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -106.70265-0.403 Picture PostScript Text
3' UTR -267.40993-0.269 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011017 - TRASH
IPR010507 - Znf_MYM
IPR006580 - Znf_TTF

Pfam Domains:
PF06467 - MYM-type Zinc finger with FCS sequence motif

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2DAS
- NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9UJ78
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007010 cytoskeleton organization
GO:0007275 multicellular organism development
GO:0022604 regulation of cell morphogenesis

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  KJ897981 - Synthetic construct Homo sapiens clone ccsbBroadEn_07375 ZMYM5 gene, encodes complete protein.
BX647750 - Homo sapiens mRNA; cDNA DKFZp779H233 (from clone DKFZp779H233).
JD558320 - Sequence 539344 from Patent EP1572962.
JD540189 - Sequence 521213 from Patent EP1572962.
JD558319 - Sequence 539343 from Patent EP1572962.
JD560096 - Sequence 541120 from Patent EP1572962.
JD564395 - Sequence 545419 from Patent EP1572962.
AF161535 - Homo sapiens HSPC050 mRNA, complete cds.
BC007048 - Homo sapiens zinc finger, MYM-type 5, mRNA (cDNA clone MGC:12459 IMAGE:3681047), complete cds.
LF384994 - JP 2014500723-A/192497: Polycomb-Associated Non-Coding RNAs.
AJ133352 - Homo sapiens mRNA for ZNF237 protein, major splice variant.
AJ133353 - Homo sapiens mRNA for ZNF237 protein, minor splice variant (b).
AJ133354 - Homo sapiens mRNA for ZNF237 protein, minor splice variant (c).
AJ133355 - Homo sapiens mRNA for ZNF237 protein, minor splice variant (a).
LF334663 - JP 2014500723-A/142166: Polycomb-Associated Non-Coding RNAs.
JD504263 - Sequence 485287 from Patent EP1572962.
BT006687 - Homo sapiens zinc finger protein 237 mRNA, complete cds.
JD109932 - Sequence 90956 from Patent EP1572962.
LF334664 - JP 2014500723-A/142167: Polycomb-Associated Non-Coding RNAs.
JD438916 - Sequence 419940 from Patent EP1572962.
AK312724 - Homo sapiens cDNA, FLJ93130, Homo sapiens zinc finger protein 237 (ZNF237), mRNA.
LF334665 - JP 2014500723-A/142168: Polycomb-Associated Non-Coding RNAs.
LF334666 - JP 2014500723-A/142169: Polycomb-Associated Non-Coding RNAs.
JD533424 - Sequence 514448 from Patent EP1572962.
JD070327 - Sequence 51351 from Patent EP1572962.
JD420898 - Sequence 401922 from Patent EP1572962.
MA620571 - JP 2018138019-A/192497: Polycomb-Associated Non-Coding RNAs.
MA570240 - JP 2018138019-A/142166: Polycomb-Associated Non-Coding RNAs.
MA570241 - JP 2018138019-A/142167: Polycomb-Associated Non-Coding RNAs.
MA570242 - JP 2018138019-A/142168: Polycomb-Associated Non-Coding RNAs.
MA570243 - JP 2018138019-A/142169: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2R6V1, HSPC050, NM_001142684, NP_001136156, Q5T6E1, Q5T6E2, Q5T6E4, Q96IY6, Q9NZY5, Q9UBW0, Q9UJ77, Q9UJ78, ZMYM5_HUMAN, ZNF198L1, ZNF237
UCSC ID: uc010tcn.1
RefSeq Accession: NM_001142684
Protein: Q9UJ78 (aka ZMYM5_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001142684.1
exon count: 8CDS single in 3' UTR: no RNA size: 3268
ORF size: 2010CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4206.50frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.