Human Gene SDAD1 (ENST00000356260.10_7) from GENCODE V47lift37
  Description: SDA1 domain containing 1, transcript variant 1 (from RefSeq NM_018115.4)
Gencode Transcript: ENST00000356260.10_7
Gencode Gene: ENSG00000198301.12_10
Transcript (Including UTRs)
   Position: hg19 chr4:76,871,068-76,912,098 Size: 41,031 Total Exon Count: 22 Strand: -
Coding Region
   Position: hg19 chr4:76,871,903-76,911,994 Size: 40,092 Coding Exon Count: 22 

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 (chr4:76,871,068-76,912,098)mRNA (may differ from genome)Protein (687 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SDA1_HUMAN
DESCRIPTION: RecName: Full=Protein SDA1 homolog; AltName: Full=Nucleolar protein 130; AltName: Full=SDA1 domain-containing protein 1; Short=hSDA;
FUNCTION: Required for 60S pre-ribosomal subunits export to the cytoplasm (By similarity).
INTERACTION: Q15583:TGIF1; NbExp=1; IntAct=EBI-1043768, EBI-714215;
SUBCELLULAR LOCATION: Nucleus, nucleolus.
TISSUE SPECIFICITY: Highly expressed in testis, kidney, spleen, brain and fetal tissues. Also expressed at lower level in heart, lung, liver, small intestine, ovary, uterus, mammary gland and placenta.
POLYMORPHISM: Variations in SDAD1 may be a cause of susceptibility to seasonal allergic rhinitis (SAR). SAR is a common allergic disorder characterized by episodes of sneezing, rhinorrhea, and swelling of the nasal mucosa.
MISCELLANEOUS: DAZL and PUM2 bind its 3'-UTR mRNA, suggesting that these proteins may regulate its translation.
SIMILARITY: Belongs to the SDA1 family.
SEQUENCE CAUTION: Sequence=AAI07896.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=BAA91648.1; Type=Frameshift; Positions=53; Sequence=BAB14177.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAB14790.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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: SDAD1
Diseases sorted by gene-association score: rhinitis (5), allergic rhinitis (5)

-  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: 17.67 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 501.07 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 -34.30104-0.330 Picture PostScript Text
3' UTR -200.00835-0.240 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
IPR016024 - ARM-type_fold
IPR007949 - SDA1
IPR012977 - Uncharacterised_NUC130/133_N

Pfam Domains:
PF05285 - SDA1
PF08158 - NUC130/3NT domain

SCOP Domains:
48371 - ARM repeat

ModBase Predicted Comparative 3D Structure on Q9NVU7
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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 orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003674 molecular_function

Biological Process:
GO:0000055 ribosomal large subunit export from nucleus
GO:0015031 protein transport
GO:0030036 actin cytoskeleton organization
GO:0042254 ribosome biogenesis
GO:0042273 ribosomal large subunit biogenesis

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  CR749574 - Homo sapiens mRNA; cDNA DKFZp686E22207 (from clone DKFZp686E22207).
AK024031 - Homo sapiens cDNA FLJ13969 fis, clone Y79AA1001511.
AK001360 - Homo sapiens cDNA FLJ10498 fis, clone NT2RP2000328.
JD285976 - Sequence 267000 from Patent EP1572962.
JD297079 - Sequence 278103 from Patent EP1572962.
JD060888 - Sequence 41912 from Patent EP1572962.
JD284579 - Sequence 265603 from Patent EP1572962.
AK300074 - Homo sapiens cDNA FLJ55367 complete cds, highly similar to Rattus norvegicus SDA1 domain containing 1 (Sdad1), mRNA.
JD245247 - Sequence 226271 from Patent EP1572962.
JD241345 - Sequence 222369 from Patent EP1572962.
JD101414 - Sequence 82438 from Patent EP1572962.
JD486220 - Sequence 467244 from Patent EP1572962.
JD302470 - Sequence 283494 from Patent EP1572962.
BC168370 - Synthetic construct Homo sapiens clone IMAGE:100068266, MGC:195883 SDA1 domain containing 1 (SDAD1) mRNA, encodes complete protein.
BC048351 - Homo sapiens SDA1 domain containing 1, mRNA (cDNA clone IMAGE:5553438).
AK307540 - Homo sapiens cDNA, FLJ97488.
AK022683 - Homo sapiens cDNA FLJ12621 fis, clone NT2RM4001715.
JD448951 - Sequence 429975 from Patent EP1572962.
JD412037 - Sequence 393061 from Patent EP1572962.
BC054040 - Homo sapiens SDA1 domain containing 1, mRNA (cDNA clone IMAGE:6500652), partial cds.
BC063797 - Homo sapiens SDA1 domain containing 1, mRNA (cDNA clone IMAGE:6190849), partial cds.
BC107895 - Homo sapiens SDA1 domain containing 1, mRNA (cDNA clone IMAGE:6717512), partial cds.
JD524945 - Sequence 505969 from Patent EP1572962.
JD312981 - Sequence 294005 from Patent EP1572962.
JD094231 - Sequence 75255 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000356260.1, ENST00000356260.2, ENST00000356260.3, ENST00000356260.4, ENST00000356260.5, ENST00000356260.6, ENST00000356260.7, ENST00000356260.8, ENST00000356260.9, NM_018115, NUC130, Q32Q11, Q68D52, Q7Z5U4, Q9H831, Q9H9P6, Q9NVU7, SDA1_HUMAN, uc317zmb.1, uc317zmb.2
UCSC ID: ENST00000356260.10_7
RefSeq Accession: NM_018115.4
Protein: Q9NVU7 (aka SDA1_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.