Human Gene SZRD1 (uc001aym.5) Description and Page Index
  Description: Homo sapiens SUZ RNA binding domain containing 1 (SZRD1), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:16,693,525-16,724,643 Size: 31,119 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr1:16,693,753-16,721,635 Size: 27,883 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:16,693,525-16,724,643)mRNA (may differ from genome)Protein (152 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: SZRD1_HUMAN
DESCRIPTION: RecName: Full=SUZ domain-containing protein 1; AltName: Full=Putative MAPK-activating protein PM18/PM20/PM22;
SIMILARITY: Belongs to the SZRD1 family.
SIMILARITY: Contains 1 SUZ domain.
SEQUENCE CAUTION: Sequence=CAB43245.1; Type=Erroneous initiation; Note=Translation N-terminally shortened; Sequence=CAC82500.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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: 18.28 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 295.79 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 -113.40228-0.497 Picture PostScript Text
3' UTR -1196.943008-0.398 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
IPR024771 - SUZ
IPR024642 - SUZ-C

Pfam Domains:
PF12752 - SUZ domain
PF12901 - SUZ-C motif

ModBase Predicted Comparative 3D Structure on Q7Z422
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BC023988 - Homo sapiens chromosome 1 open reading frame 144, mRNA (cDNA clone MGC:24215 IMAGE:3825796), complete cds.
BX640985 - Homo sapiens mRNA; cDNA DKFZp686E15252 (from clone DKFZp686E15252).
AJ295987 - Homo sapiens mRNA for hypothetical protein (ORF1), clone Telethon(Italy_B41)_Strait01448_FL406.
AK297926 - Homo sapiens cDNA FLJ54298 complete cds.
AK298576 - Homo sapiens cDNA FLJ51932 complete cds.
AL050028 - Homo sapiens mRNA; cDNA DKFZp566C0424 (from clone DKFZp566C0424); partial cds.
AB097046 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM22.
AB097042 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM18.
AB097043 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM19.
AK308787 - Homo sapiens cDNA, FLJ98828.
AK316205 - Homo sapiens cDNA, FLJ79104 complete cds.
BC065538 - Homo sapiens chromosome 1 open reading frame 144, mRNA (cDNA clone MGC:70432 IMAGE:6053254), complete cds.
AB097044 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM20.
AB097045 - Homo sapiens mRNA for putative MAPK activating protein, complete cds, clone: PM21.
HQ448631 - Synthetic construct Homo sapiens clone IMAGE:100072070; CCSB012289_01 chromosome 1 open reading frame 144 (C1orf144) gene, encodes complete protein.
KJ893521 - Synthetic construct Homo sapiens clone ccsbBroadEn_02915 C1orf144 gene, encodes complete protein.
BC010631 - Homo sapiens chromosome 1 open reading frame 144, mRNA (cDNA clone IMAGE:3867552), with apparent retained intron.
JD129922 - Sequence 110946 from Patent EP1572962.
JD409863 - Sequence 390887 from Patent EP1572962.
JD234405 - Sequence 215429 from Patent EP1572962.
JD076979 - Sequence 58003 from Patent EP1572962.
JD493578 - Sequence 474602 from Patent EP1572962.
JD539057 - Sequence 520081 from Patent EP1572962.
JD044313 - Sequence 25337 from Patent EP1572962.
JD101620 - Sequence 82644 from Patent EP1572962.
JD301588 - Sequence 282612 from Patent EP1572962.
JD115829 - Sequence 96853 from Patent EP1572962.
JD389731 - Sequence 370755 from Patent EP1572962.
JD343356 - Sequence 324380 from Patent EP1572962.
JD493937 - Sequence 474961 from Patent EP1572962.
JD132358 - Sequence 113382 from Patent EP1572962.
JD515616 - Sequence 496640 from Patent EP1572962.
JD146669 - Sequence 127693 from Patent EP1572962.
DQ595013 - Homo sapiens piRNA piR-61125, complete sequence.
AK098272 - Homo sapiens cDNA FLJ40953 fis, clone UTERU2010417.
DQ588460 - Homo sapiens piRNA piR-55572, complete sequence.
AL832937 - Homo sapiens mRNA; cDNA DKFZp666F1410 (from clone DKFZp666F1410).

-  Other Names for This Gene
  Alternate Gene Symbols: A8MXJ2, C1orf144, NM_001114600, NP_001108072, Q7Z422, Q7Z424, Q8IVM2, Q8TBV3, Q9Y403, SZRD1_HUMAN, uc001aym.4
UCSC ID: uc001aym.5
RefSeq Accession: NM_001114600
Protein: Q7Z422 (aka SZRD1_HUMAN)
CCDS: CCDS44065.1, CCDS60000.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001114600.2
exon count: 4CDS single in 3' UTR: no RNA size: 3695
ORF size: 459CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 985.00frame 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: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 3078# 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.