Human Gene ZNF638 (ENST00000264447.9_5) from GENCODE V47lift37
  Description: zinc finger protein 638, transcript variant 1 (from RefSeq NM_014497.5)
Gencode Transcript: ENST00000264447.9_5
Gencode Gene: ENSG00000075292.20_16
Transcript (Including UTRs)
   Position: hg19 chr2:71,558,912-71,662,191 Size: 103,280 Total Exon Count: 28 Strand: +
Coding Region
   Position: hg19 chr2:71,576,085-71,661,937 Size: 85,853 Coding Exon Count: 27 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:71,558,912-71,662,191)mRNA (may differ from genome)Protein (1978 aa)
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UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ZN638_HUMAN
DESCRIPTION: RecName: Full=Zinc finger protein 638; AltName: Full=Cutaneous T-cell lymphoma-associated antigen se33-1; Short=CTCL-associated antigen se33-1; AltName: Full=Nuclear protein 220; AltName: Full=Zinc finger matrin-like protein;
FUNCTION: Early regulator of adipogenesis that works as a transcription cofactor of CEBPs, controlling the expression of PPARG and probably of other proadipogenic genes, such as SREBF1 (By similarity). Binds to cytidine clusters in double-stranded DNA.
SUBUNIT: Interacts with FHL2. Interacts with CEBPA, CEBPD and CEBPG (By similarity).
SUBCELLULAR LOCATION: Nucleus speckle.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
MISCELLANEOUS: Isoform 5 is a tumor-associated antigen found in several cutaneous T-cell lymphoma (CTCL), and in particular in mycosis fungoides patients and in Sezary syndrome patients.
SIMILARITY: Contains 1 matrin-type zinc finger.
SIMILARITY: Contains 2 RRM (RNA recognition motif) domains.
SEQUENCE CAUTION: Sequence=AAH64530.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ZNF638
Diseases sorted by gene-association score: cutaneous t cell lymphoma (27)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 18.93 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 497.63 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -101.50296-0.343 Picture PostScript Text
3' UTR -41.90254-0.165 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
IPR012677 - Nucleotide-bd_a/b_plait
IPR000504 - RRM_dom
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR000690 - Znf_C2H2_matrin
IPR003604 - Znf_U1

Pfam Domains:
PF00076 - RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
PF12171 - Zinc-finger double-stranded RNA-binding

SCOP Domains:
50249 - Nucleic acid-binding proteins
54928 - RNA-binding domain, RBD
55261 - GAD domain-like
57667 - beta-beta-alpha zinc fingers

ModBase Predicted Comparative 3D Structure on Q14966
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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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003690 double-stranded DNA binding
GO:0003723 RNA 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:0008380 RNA splicing

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0016607 nuclear speck
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  AK309221 - Homo sapiens cDNA, FLJ99262.
AK303723 - Homo sapiens cDNA FLJ60083 partial cds, highly similar to Zinc finger protein 638.
AK293938 - Homo sapiens cDNA FLJ60235 complete cds, highly similar to Zinc finger protein 638.
CR749322 - Homo sapiens mRNA; cDNA DKFZp686P1231 (from clone DKFZp686P1231).
LF384137 - JP 2014500723-A/191640: Polycomb-Associated Non-Coding RNAs.
D83032 - Homo sapiens mRNA for nuclear protein, NP220, complete cds.
BC010355 - Homo sapiens zinc finger protein 638, mRNA (cDNA clone IMAGE:4248516), with apparent retained intron.
BX537425 - Homo sapiens mRNA; cDNA DKFZp686A179 (from clone DKFZp686A179); complete cds.
BC024000 - Homo sapiens zinc finger protein 638, mRNA (cDNA clone IMAGE:4824896), complete cds.
AK291198 - Homo sapiens cDNA FLJ77126 partial cds, highly similar to Homo sapiens zinc finger protein 638 (ZNF638), transcript variant 1, mRNA.
BC143728 - Homo sapiens zinc finger protein 638, mRNA (cDNA clone MGC:177259 IMAGE:9052242), complete cds.
BC083513 - Homo sapiens zinc finger protein 638, mRNA (cDNA clone MGC:90196 IMAGE:5540321), complete cds.
MA619714 - JP 2018138019-A/191640: Polycomb-Associated Non-Coding RNAs.
LF207236 - JP 2014500723-A/14739: Polycomb-Associated Non-Coding RNAs.
JD407427 - Sequence 388451 from Patent EP1572962.
LF363366 - JP 2014500723-A/170869: Polycomb-Associated Non-Coding RNAs.
MA598943 - JP 2018138019-A/170869: Polycomb-Associated Non-Coding RNAs.
MA442813 - JP 2018138019-A/14739: Polycomb-Associated Non-Coding RNAs.
JD101689 - Sequence 82713 from Patent EP1572962.
JD550572 - Sequence 531596 from Patent EP1572962.
LF363384 - JP 2014500723-A/170887: Polycomb-Associated Non-Coding RNAs.
JD293769 - Sequence 274793 from Patent EP1572962.
BC064530 - Homo sapiens zinc finger protein 638, mRNA (cDNA clone IMAGE:5587095), partial cds.
AB385163 - Synthetic construct DNA, clone: pF1KB6004, Homo sapiens ZNF638 gene for zinc finger protein 638, complete cds, without stop codon, in Flexi system.
AF534078 - Homo sapiens putative NP220 nuclear protein isoform (NP220) mRNA, complete cds; alternatively spliced.
CU692836 - Synthetic construct Homo sapiens gateway clone IMAGE:100020418 5' read ZNF638 mRNA.
KJ904730 - Synthetic construct Homo sapiens clone ccsbBroadEn_14124 ZNF638 gene, encodes complete protein.
LF363385 - JP 2014500723-A/170888: Polycomb-Associated Non-Coding RNAs.
LF363386 - JP 2014500723-A/170889: Polycomb-Associated Non-Coding RNAs.
LF363387 - JP 2014500723-A/170890: Polycomb-Associated Non-Coding RNAs.
LF363388 - JP 2014500723-A/170891: Polycomb-Associated Non-Coding RNAs.
LF363389 - JP 2014500723-A/170892: Polycomb-Associated Non-Coding RNAs.
LF363390 - JP 2014500723-A/170893: Polycomb-Associated Non-Coding RNAs.
AK098006 - Homo sapiens cDNA FLJ40687 fis, clone THYMU2024121, highly similar to Homo sapiens mRNA for nuclear protein, NP220.
LF363391 - JP 2014500723-A/170894: Polycomb-Associated Non-Coding RNAs.
LF363392 - JP 2014500723-A/170895: Polycomb-Associated Non-Coding RNAs.
LF363393 - JP 2014500723-A/170896: Polycomb-Associated Non-Coding RNAs.
LF363404 - JP 2014500723-A/170907: Polycomb-Associated Non-Coding RNAs.
LF363405 - JP 2014500723-A/170908: Polycomb-Associated Non-Coding RNAs.
LF363406 - JP 2014500723-A/170909: Polycomb-Associated Non-Coding RNAs.
LF363407 - JP 2014500723-A/170910: Polycomb-Associated Non-Coding RNAs.
LF363409 - JP 2014500723-A/170912: Polycomb-Associated Non-Coding RNAs.
LF363412 - JP 2014500723-A/170915: Polycomb-Associated Non-Coding RNAs.
AF273049 - Homo sapiens CTCL tumor antigen se33-1 mRNA, complete cds.
LF363419 - JP 2014500723-A/170922: Polycomb-Associated Non-Coding RNAs.
LF363421 - JP 2014500723-A/170924: Polycomb-Associated Non-Coding RNAs.
LF363422 - JP 2014500723-A/170925: Polycomb-Associated Non-Coding RNAs.
LF363423 - JP 2014500723-A/170926: Polycomb-Associated Non-Coding RNAs.
LF363424 - JP 2014500723-A/170927: Polycomb-Associated Non-Coding RNAs.
LF363425 - JP 2014500723-A/170928: Polycomb-Associated Non-Coding RNAs.
LF363426 - JP 2014500723-A/170929: Polycomb-Associated Non-Coding RNAs.
AK128706 - Homo sapiens cDNA FLJ46873 fis, clone UTERU3013302, highly similar to Homo sapiens NP220 nuclear protein (NP220).
LF363430 - JP 2014500723-A/170933: Polycomb-Associated Non-Coding RNAs.
AK093578 - Homo sapiens cDNA FLJ36259 fis, clone THYMU2002490, highly similar to Homo sapiens mRNA for nuclear protein, NP220.
LF363434 - JP 2014500723-A/170937: Polycomb-Associated Non-Coding RNAs.
LF363435 - JP 2014500723-A/170938: Polycomb-Associated Non-Coding RNAs.
LF363436 - JP 2014500723-A/170939: Polycomb-Associated Non-Coding RNAs.
LF363439 - JP 2014500723-A/170942: Polycomb-Associated Non-Coding RNAs.
DQ577139 - Homo sapiens piRNA piR-45251, complete sequence.
LF363440 - JP 2014500723-A/170943: Polycomb-Associated Non-Coding RNAs.
LF363441 - JP 2014500723-A/170944: Polycomb-Associated Non-Coding RNAs.
LF363442 - JP 2014500723-A/170945: Polycomb-Associated Non-Coding RNAs.
LF363443 - JP 2014500723-A/170946: Polycomb-Associated Non-Coding RNAs.
LF363450 - JP 2014500723-A/170953: Polycomb-Associated Non-Coding RNAs.
JD550586 - Sequence 531610 from Patent EP1572962.
LF363451 - JP 2014500723-A/170954: Polycomb-Associated Non-Coding RNAs.
JD314198 - Sequence 295222 from Patent EP1572962.
MA598961 - JP 2018138019-A/170887: Polycomb-Associated Non-Coding RNAs.
MA598962 - JP 2018138019-A/170888: Polycomb-Associated Non-Coding RNAs.
MA598963 - JP 2018138019-A/170889: Polycomb-Associated Non-Coding RNAs.
MA598964 - JP 2018138019-A/170890: Polycomb-Associated Non-Coding RNAs.
MA598965 - JP 2018138019-A/170891: Polycomb-Associated Non-Coding RNAs.
MA598966 - JP 2018138019-A/170892: Polycomb-Associated Non-Coding RNAs.
MA598967 - JP 2018138019-A/170893: Polycomb-Associated Non-Coding RNAs.
MA598968 - JP 2018138019-A/170894: Polycomb-Associated Non-Coding RNAs.
MA598969 - JP 2018138019-A/170895: Polycomb-Associated Non-Coding RNAs.
MA598970 - JP 2018138019-A/170896: Polycomb-Associated Non-Coding RNAs.
MA598981 - JP 2018138019-A/170907: Polycomb-Associated Non-Coding RNAs.
MA598982 - JP 2018138019-A/170908: Polycomb-Associated Non-Coding RNAs.
MA598983 - JP 2018138019-A/170909: Polycomb-Associated Non-Coding RNAs.
MA598984 - JP 2018138019-A/170910: Polycomb-Associated Non-Coding RNAs.
MA598986 - JP 2018138019-A/170912: Polycomb-Associated Non-Coding RNAs.
MA598989 - JP 2018138019-A/170915: Polycomb-Associated Non-Coding RNAs.
MA598996 - JP 2018138019-A/170922: Polycomb-Associated Non-Coding RNAs.
MA598998 - JP 2018138019-A/170924: Polycomb-Associated Non-Coding RNAs.
MA598999 - JP 2018138019-A/170925: Polycomb-Associated Non-Coding RNAs.
MA599000 - JP 2018138019-A/170926: Polycomb-Associated Non-Coding RNAs.
MA599001 - JP 2018138019-A/170927: Polycomb-Associated Non-Coding RNAs.
MA599002 - JP 2018138019-A/170928: Polycomb-Associated Non-Coding RNAs.
MA599003 - JP 2018138019-A/170929: Polycomb-Associated Non-Coding RNAs.
MA599007 - JP 2018138019-A/170933: Polycomb-Associated Non-Coding RNAs.
MA599011 - JP 2018138019-A/170937: Polycomb-Associated Non-Coding RNAs.
MA599012 - JP 2018138019-A/170938: Polycomb-Associated Non-Coding RNAs.
MA599013 - JP 2018138019-A/170939: Polycomb-Associated Non-Coding RNAs.
MA599016 - JP 2018138019-A/170942: Polycomb-Associated Non-Coding RNAs.
MA599017 - JP 2018138019-A/170943: Polycomb-Associated Non-Coding RNAs.
MA599018 - JP 2018138019-A/170944: Polycomb-Associated Non-Coding RNAs.
MA599019 - JP 2018138019-A/170945: Polycomb-Associated Non-Coding RNAs.
MA599020 - JP 2018138019-A/170946: Polycomb-Associated Non-Coding RNAs.
MA599027 - JP 2018138019-A/170953: Polycomb-Associated Non-Coding RNAs.
MA599028 - JP 2018138019-A/170954: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A0A096LPH6, B5MDV1, B7ZLD1, ENST00000264447.1, ENST00000264447.2, ENST00000264447.3, ENST00000264447.4, ENST00000264447.5, ENST00000264447.6, ENST00000264447.7, ENST00000264447.8, NM_014497, NP220 , Q14966, Q53R34, Q5XJ05, Q68DP3, Q6P2H2, Q7Z3T7, Q8NF92, Q8TCA1, Q9H2G1, Q9NP37, uc317hso.1, uc317hso.2, ZFML, ZN638_HUMAN
UCSC ID: ENST00000264447.9_5
RefSeq Accession: NM_014497.5
Protein: Q14966 (aka ZN638_HUMAN)

-  Gene Model Information
  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.