Human Gene ROPN1B (uc003eih.3)
  Description: Homo sapiens rhophilin associated tail protein 1B (ROPN1B), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr3:125,688,028-125,702,296 Size: 14,269 Total Exon Count: 6 Strand: +
Coding Region
   Position: hg19 chr3:125,690,898-125,702,163 Size: 11,266 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:125,688,028-125,702,296)mRNA (may differ from genome)Protein (212 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ROP1B_HUMAN
DESCRIPTION: RecName: Full=Ropporin-1B; AltName: Full=Rhophilin-associated protein 1B;
SUBUNIT: Homodimer. Interacts with RHPN1. May interact with SPA17 (By similarity). Interacts with AKAP3.
SUBCELLULAR LOCATION: Note=In the sperm tail, found in the principal piece and in the cytoplasmic droplet located at the distal end of the midpiece. Inner surface of the fibrous sheath (By similarity).
DOMAIN: The RIIa domain mediates interaction with AKAP3.
MISCELLANEOUS: 'Ropporin' comes from the Japanese word 'oppo' which means 'tail'.
SIMILARITY: Belongs to the ropporin family.
SIMILARITY: Contains 1 RIIa domain.

-  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


+  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: 60.14 RPKM in Testis
Total median expression: 72.26 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 -95.00228-0.417 Picture PostScript Text
3' UTR -17.80133-0.134 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
IPR003117 - cAMP_dep_PK_reg_su_I/II_a/b

SCOP Domains:
47391 - Dimerization-anchoring domain of cAMP-dependent type II PK regulatory subunit

ModBase Predicted Comparative 3D Structure on Q9BZX4
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    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0030159 receptor signaling complex scaffold activity
GO:0042803 protein homodimerization activity
GO:0046982 protein heterodimerization activity

Biological Process:
GO:0001932 regulation of protein phosphorylation
GO:0007266 Rho protein signal transduction
GO:0007283 spermatogenesis
GO:0007340 acrosome reaction
GO:0007342 fusion of sperm to egg plasma membrane
GO:0030317 flagellated sperm motility
GO:0044782 cilium organization
GO:0048240 sperm capacitation
GO:0061512 protein localization to cilium
GO:0061640 cytoskeleton-dependent cytokinesis
GO:0098609 cell-cell adhesion

Cellular Component:
GO:0005737 cytoplasm
GO:0005929 cilium
GO:0031514 motile cilium
GO:0042995 cell projection


-  Descriptions from all associated GenBank mRNAs
  KJ903890 - Synthetic construct Homo sapiens clone ccsbBroadEn_13284 ROPN1B gene, encodes complete protein.
AF231410 - Homo sapiens AKAP-binding sperm protein ropporin mRNA, complete cds.
HM005706 - Homo sapiens clone HTL-T-83P testis tissue sperm-binding protein Li 83P mRNA, complete cds.
BC141849 - Homo sapiens ropporin, rhophilin associated protein 1B, mRNA (cDNA clone MGC:167014 IMAGE:8860347), complete cds.
BC140022 - Synthetic construct Homo sapiens clone IMAGE:100013578, MGC:167187 ropporin, rhophilin associated protein 1B (ROPN1B) mRNA, encodes complete protein.
BC015413 - Homo sapiens ropporin, rhophilin associated protein 1B, mRNA (cDNA clone MGC:21964 IMAGE:4394326), complete cds.
AK302014 - Homo sapiens cDNA FLJ55261 complete cds, highly similar to Homo sapiens ropporin, rhophilin associated protein 1B (ROPN1B), mRNA.
JD423742 - Sequence 404766 from Patent EP1572962.
JD498309 - Sequence 479333 from Patent EP1572962.
JD541113 - Sequence 522137 from Patent EP1572962.
JD359467 - Sequence 340491 from Patent EP1572962.
JD563894 - Sequence 544918 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DNA6, NM_001012337, NP_001012337, Q96BM7, Q9BZX4, ROP1B_HUMAN
UCSC ID: uc003eih.3
RefSeq Accession: NM_001012337
Protein: Q9BZX4 (aka ROP1B_HUMAN)
CCDS: CCDS33841.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001012337.1
exon count: 6CDS single in 3' UTR: no RNA size: 1018
ORF size: 639CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1478.00frame shift in genome: no % Coverage: 98.23
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.