Human Gene ZNHIT6 (ENST00000370574.4_12) from GENCODE V45lift37
  Description: Homo sapiens zinc finger HIT-type containing 6 (ZNHIT6), transcript variant 1, mRNA. (from RefSeq NM_017953)
Gencode Transcript: ENST00000370574.4_12
Gencode Gene: ENSG00000117174.11_13
Transcript (Including UTRs)
   Position: hg19 chr1:86,115,100-86,174,116 Size: 59,017 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg19 chr1:86,119,741-86,173,967 Size: 54,227 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2024-04-24 11:59:55

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:86,115,100-86,174,116)mRNA (may differ from genome)Protein (470 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkHGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: BCD1_HUMAN
DESCRIPTION: RecName: Full=Box C/D snoRNA protein 1; AltName: Full=Serologically defined breast cancer antigen NY-BR-75; AltName: Full=Zinc finger HIT domain-containing protein 6;
FUNCTION: Required for box C/D snoRNAs accumulation involved in snoRNA processing, snoRNA transport to the nucleolus and ribosome biogenesis.
SUBUNIT: Interacts with FBL, SNU13, NOP58, NUFIP1, RUVBL1, RUVBL2 and TAF9 (PubMed:17636026). Interacts (via HIT-type zinc finger) with the RUVBL1/RUVBL2 complex in the presence of ADP (PubMed:28561026).
INTERACTION: Q9NWK9; Q9UHK0: NUFIP1; NbExp=2; IntAct=EBI-2563515, EBI-2563549;
SIMILARITY: Belongs to the BCD1 family.
SEQUENCE CAUTION: Sequence=AAG48263.1; Type=Frameshift; Evidence=; Sequence=BAA91349.1; Type=Erroneous initiation; Evidence=;

-  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


-  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: 7.94 RPKM in Cells - Cultured fibroblasts
Total median expression: 205.59 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 -48.90149-0.328 Picture PostScript Text
3' UTR -1188.304641-0.256 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
IPR007529 - Znf_HIT

Pfam Domains:
PF04438 - HIT zinc finger

ModBase Predicted Comparative 3D Structure on Q9NWK9
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001094 TFIID-class transcription factor binding
GO:0005515 protein binding
GO:0019899 enzyme binding
GO:0042802 identical protein binding
GO:0046872 metal ion binding
GO:0051117 ATPase binding

Biological Process:
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000492 box C/D snoRNP assembly
GO:0042254 ribosome biogenesis
GO:0048254 snoRNA localization
GO:0051259 protein oligomerization

Cellular Component:
GO:0005634 nucleus
GO:0070062 extracellular exosome
GO:0070761 pre-snoRNP complex


-  Descriptions from all associated GenBank mRNAs
  AK022664 - Homo sapiens cDNA FLJ12602 fis, clone NT2RM4001437.
LF206358 - JP 2014500723-A/13861: Polycomb-Associated Non-Coding RNAs.
BC110898 - Homo sapiens zinc finger, HIT type 6, mRNA (cDNA clone MGC:131963 IMAGE:6012059), complete cds.
AL442074 - Homo sapiens mRNA; cDNA DKFZp434M1929 (from clone DKFZp434M1929).
AK000736 - Homo sapiens cDNA FLJ20729 fis, clone HEP11012.
AK000767 - Homo sapiens cDNA FLJ20760 fis, clone HEP01082.
AF308296 - Homo sapiens serologically defined breast cancer antigen NY-BR-75 mRNA, partial cds.
JD053032 - Sequence 34056 from Patent EP1572962.
JD194303 - Sequence 175327 from Patent EP1572962.
BC026236 - Homo sapiens zinc finger, HIT type 6, mRNA (cDNA clone MGC:22219 IMAGE:4664103), complete cds.
JD059775 - Sequence 40799 from Patent EP1572962.
JD351148 - Sequence 332172 from Patent EP1572962.
JD099268 - Sequence 80292 from Patent EP1572962.
JD504342 - Sequence 485366 from Patent EP1572962.
JD555187 - Sequence 536211 from Patent EP1572962.
JD475549 - Sequence 456573 from Patent EP1572962.
JD318094 - Sequence 299118 from Patent EP1572962.
JD285446 - Sequence 266470 from Patent EP1572962.
JD113908 - Sequence 94932 from Patent EP1572962.
JD285445 - Sequence 266469 from Patent EP1572962.
JD272872 - Sequence 253896 from Patent EP1572962.
JD334048 - Sequence 315072 from Patent EP1572962.
JD309887 - Sequence 290911 from Patent EP1572962.
JD103419 - Sequence 84443 from Patent EP1572962.
JD148666 - Sequence 129690 from Patent EP1572962.
JD363188 - Sequence 344212 from Patent EP1572962.
JD521462 - Sequence 502486 from Patent EP1572962.
JD497385 - Sequence 478409 from Patent EP1572962.
JD108101 - Sequence 89125 from Patent EP1572962.
JD523089 - Sequence 504113 from Patent EP1572962.
JD154447 - Sequence 135471 from Patent EP1572962.
JD380037 - Sequence 361061 from Patent EP1572962.
JD487713 - Sequence 468737 from Patent EP1572962.
JD367634 - Sequence 348658 from Patent EP1572962.
JD314095 - Sequence 295119 from Patent EP1572962.
JD464878 - Sequence 445902 from Patent EP1572962.
JD255872 - Sequence 236896 from Patent EP1572962.
JD241377 - Sequence 222401 from Patent EP1572962.
JD110461 - Sequence 91485 from Patent EP1572962.
JD347265 - Sequence 328289 from Patent EP1572962.
JD558623 - Sequence 539647 from Patent EP1572962.
JD151561 - Sequence 132585 from Patent EP1572962.
DQ592349 - Homo sapiens piRNA piR-59461, complete sequence.
AK298149 - Homo sapiens cDNA FLJ56607 complete cds.
JD328593 - Sequence 309617 from Patent EP1572962.
AK314566 - Homo sapiens cDNA, FLJ95393.
EU446811 - Synthetic construct Homo sapiens clone IMAGE:100069897; IMAGE:100012020; FLH257128.01L chromosome 1 open reading frame 181 (C1orf181) gene, encodes complete protein.
LF353505 - JP 2014500723-A/161008: Polycomb-Associated Non-Coding RNAs.
LF353504 - JP 2014500723-A/161007: Polycomb-Associated Non-Coding RNAs.
LF353503 - JP 2014500723-A/161006: Polycomb-Associated Non-Coding RNAs.
LF353502 - JP 2014500723-A/161005: Polycomb-Associated Non-Coding RNAs.
LF353501 - JP 2014500723-A/161004: Polycomb-Associated Non-Coding RNAs.
JD497035 - Sequence 478059 from Patent EP1572962.
JD555300 - Sequence 536324 from Patent EP1572962.
MA441935 - JP 2018138019-A/13861: Polycomb-Associated Non-Coding RNAs.
MA589082 - JP 2018138019-A/161008: Polycomb-Associated Non-Coding RNAs.
MA589081 - JP 2018138019-A/161007: Polycomb-Associated Non-Coding RNAs.
MA589080 - JP 2018138019-A/161006: Polycomb-Associated Non-Coding RNAs.
MA589079 - JP 2018138019-A/161005: Polycomb-Associated Non-Coding RNAs.
MA589078 - JP 2018138019-A/161004: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RBA1, B4DP13, BCD1, BCD1_HUMAN, C1orf181, D3DT20, ENST00000370574.1, ENST00000370574.2, ENST00000370574.3, NM_017953, Q9H278, Q9H3X3, Q9NWK9, Q9NWN0, uc318imf.1
UCSC ID: ENST00000370574.4_12
RefSeq Accession: NM_017953
Protein: Q9NWK9 (aka BCD1_HUMAN)

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