Human Gene SRP9 (uc001hph.3) Description and Page Index
  Description: Homo sapiens signal recognition particle 9kDa (SRP9), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:225,965,515-225,978,168 Size: 12,654 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr1:225,965,643-225,974,671 Size: 9,029 Coding Exon Count: 3 

Page IndexSequence and LinksCTDGene AllelesRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:225,965,515-225,978,168)mRNA (may differ from genome)Protein (82 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCLynxMGIOMIM
PubMedReactomeStanford SOURCETreefamUniProtKB

-  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: 102.91 RPKM in Brain - Hypothalamus
Total median expression: 3095.30 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 -45.30128-0.354 Picture PostScript Text
3' UTR -296.621243-0.239 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
  Pfam Domains:
PF05486 - Signal recognition particle 9 kDa protein (SRP9)

SCOP Domains:
54762 - Signal recognition particle alu RNA binding heterodimer, SRP9/14

ModBase Predicted Comparative 3D Structure on P49458-2
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     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  KJ905928 - Synthetic construct Homo sapiens clone ccsbBroadEn_15598 SRP9 gene, encodes complete protein.
KJ897603 - Synthetic construct Homo sapiens clone ccsbBroadEn_06997 SRP9 gene, encodes complete protein.
KJ892198 - Synthetic construct Homo sapiens clone ccsbBroadEn_01592 SRP9 gene, encodes complete protein.
BC066957 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:87436 IMAGE:5263635), complete cds.
BC008443 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:14657 IMAGE:4102222), complete cds.
EF488978 - Homo sapiens signal recognition particle 9 kDa isoform mRNA, complete cds.
AF070649 - Homo sapiens clone 24452 mRNA sequence.
U20998 - Homo sapiens signal recognition particle subunit 9 (SRP9) mRNA, complete cds.
BC106005 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:110981 IMAGE:6026221), complete cds.
BC021995 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:24524 IMAGE:4101294), complete cds.
BC015094 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:22694 IMAGE:3930047), complete cds.
AK289595 - Homo sapiens cDNA FLJ76514 complete cds, highly similar to Homo sapiens signal recognition particle 9kDa (SRP9), mRNA.
BC045603 - Homo sapiens, clone IMAGE:4615687, mRNA.
BC022415 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:24591 IMAGE:4243562), complete cds.
BC064351 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:75133 IMAGE:4452218), complete cds.
AL050363 - Homo sapiens mRNA; cDNA DKFZp564M2223 (from clone DKFZp564M2223).
BC067845 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone MGC:87437 IMAGE:5287027), complete cds.
DL491687 - Novel nucleic acids.
BC070305 - Homo sapiens signal recognition particle 9kDa, mRNA (cDNA clone IMAGE:3829096), **** WARNING: chimeric clone ****.
BC024171 - Homo sapiens mRNA similar to ribosomal protein L31 (cDNA clone IMAGE:4091831).
JD506736 - Sequence 487760 from Patent EP1572962.
DL491688 - Novel nucleic acids.
DL490271 - Novel nucleic acids.
BC017414 - Homo sapiens, Similar to signal recognition particle 9kD, clone IMAGE:4655251, mRNA, partial cds.
JD314679 - Sequence 295703 from Patent EP1572962.
JD022617 - Sequence 3641 from Patent EP1572962.
JD168321 - Sequence 149345 from Patent EP1572962.
JD046468 - Sequence 27492 from Patent EP1572962.
JD184490 - Sequence 165514 from Patent EP1572962.
JD197399 - Sequence 178423 from Patent EP1572962.
JD298678 - Sequence 279702 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03060 - Protein export

Reactome (by CSHL, EBI, and GO)

Protein P49458 (Reactome details) participates in the following event(s):

R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP)
R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001130440, NP_001123912, P49458-2
UCSC ID: uc001hph.3
RefSeq Accession: NM_001130440
Protein: P49458-2, splice isoform of P49458 CCDS: CCDS44323.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001130440.1
exon count: 4CDS single in 3' UTR: no RNA size: 1648
ORF size: 249CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 621.00frame shift in genome: no % Coverage: 98.30
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.