Human Gene RNF145 (uc003lxo.2)
  Description: Homo sapiens ring finger protein 145 (RNF145), transcript variant 2, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr5:158,584,417-158,634,834 Size: 50,418 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr5:158,585,678-158,634,807 Size: 49,130 Coding Exon Count: 11 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:158,584,417-158,634,834)mRNA (may differ from genome)Protein (691 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RNF145
CDC HuGE Published Literature: RNF145
Positive Disease Associations: Platelet Count
Related Studies:
  1. Platelet Count
    Nicole Soranzo et al. Nature genetics 2009, A genome-wide meta-analysis identifies 22 loci associated with eight hematological parameters in the HaemGen consortium., Nature genetics. [PubMed 19820697]

-  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: 44.23 RPKM in Lung
Total median expression: 886.78 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 -7.6027-0.281 Picture PostScript Text
3' UTR -357.521261-0.284 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:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF13445 - RING-type zinc-finger
PF13639 - Ring finger domain
PF13705 - TRC8 N-terminal domain
PF13923 - Zinc finger, C3HC4 type (RING finger)

SCOP Domains:
57850 - RING/U-box

ModBase Predicted Comparative 3D Structure on Q96MT1-2
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Descriptions from all associated GenBank mRNAs
  BC042684 - Homo sapiens ring finger protein 145, mRNA (cDNA clone MGC:42676 IMAGE:4826810), complete cds.
BC044767 - Homo sapiens ring finger protein 145, mRNA (cDNA clone IMAGE:4827067).
AK098802 - Homo sapiens cDNA FLJ25936 fis, clone JTH07108.
AK056513 - Homo sapiens cDNA FLJ31951 fis, clone NT2RP7007177, weakly similar to Homo sapiens multiple membrane spanning receptor TRC8 mRNA.
AK304435 - Homo sapiens cDNA FLJ55465 complete cds, weakly similar to RING finger protein 139.
AK308394 - Homo sapiens cDNA, FLJ98342.
AK292854 - Homo sapiens cDNA FLJ75045 complete cds.
AK304228 - Homo sapiens cDNA FLJ55623 complete cds, weakly similar to RING finger protein 139.
JF432381 - Synthetic construct Homo sapiens clone IMAGE:100073579 ring finger protein 145 (RNF145) gene, encodes complete protein.
KJ900309 - Synthetic construct Homo sapiens clone ccsbBroadEn_09703 RNF145 gene, encodes complete protein.
CU692118 - Synthetic construct Homo sapiens gateway clone IMAGE:100020960 5' read RNF145 mRNA.
AK311433 - Homo sapiens cDNA, FLJ18475.
AL831829 - Homo sapiens mRNA; cDNA DKFZp547B0914 (from clone DKFZp547B0914).
BX537635 - Homo sapiens mRNA; cDNA DKFZp686M11215 (from clone DKFZp686M11215).
BX640806 - Homo sapiens mRNA; cDNA DKFZp686M20237 (from clone DKFZp686M20237).
AK126290 - Homo sapiens cDNA FLJ44310 fis, clone TRACH2025749.
AK075101 - Homo sapiens cDNA FLJ90620 fis, clone PLACE1002518.
JD507230 - Sequence 488254 from Patent EP1572962.
JD172942 - Sequence 153966 from Patent EP1572962.
JD025045 - Sequence 6069 from Patent EP1572962.
JD033582 - Sequence 14606 from Patent EP1572962.
JD026868 - Sequence 7892 from Patent EP1572962.
JD503213 - Sequence 484237 from Patent EP1572962.
JD325695 - Sequence 306719 from Patent EP1572962.
JD248773 - Sequence 229797 from Patent EP1572962.
JD280250 - Sequence 261274 from Patent EP1572962.
JD170994 - Sequence 152018 from Patent EP1572962.
JD202826 - Sequence 183850 from Patent EP1572962.
JD317366 - Sequence 298390 from Patent EP1572962.
JD339017 - Sequence 320041 from Patent EP1572962.
JD170493 - Sequence 151517 from Patent EP1572962.
JD177789 - Sequence 158813 from Patent EP1572962.
AK294323 - Homo sapiens cDNA FLJ60012 complete cds.
JD306762 - Sequence 287786 from Patent EP1572962.
JD360312 - Sequence 341336 from Patent EP1572962.
JD297234 - Sequence 278258 from Patent EP1572962.
JD469274 - Sequence 450298 from Patent EP1572962.
JD438703 - Sequence 419727 from Patent EP1572962.
JD044355 - Sequence 25379 from Patent EP1572962.
JD410717 - Sequence 391741 from Patent EP1572962.
JD348316 - Sequence 329340 from Patent EP1572962.
JD328711 - Sequence 309735 from Patent EP1572962.
JD092390 - Sequence 73414 from Patent EP1572962.
JD347601 - Sequence 328625 from Patent EP1572962.
JD237629 - Sequence 218653 from Patent EP1572962.
JD215746 - Sequence 196770 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: NM_144726, NP_653327, Q96MT1-2
UCSC ID: uc003lxo.2
RefSeq Accession: NM_144726
Protein: Q96MT1-2, splice isoform of Q96MT1 CCDS: CCDS4344.1, CCDS56390.1, CCDS56391.1, CCDS56392.1, CCDS56393.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_144726.2
exon count: 11CDS single in 3' UTR: no RNA size: 3379
ORF size: 2076CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4240.00frame shift in genome: no % Coverage: 99.56
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.