Rsph3a (radial spoke 3A homolog (Chlamydomonas)) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Rsph3a (radial spoke 3A homolog (Chlamydomonas)) Mus musculus
Analyze
Symbol: Rsph3a
Name: radial spoke 3A homolog (Chlamydomonas)
RGD ID: 1624888
MGI Page MGI
Description: Predicted to be located in cytoplasm; cytoskeleton; and motile cilium. Predicted to be active in cilium. Is expressed in several structures, including brain; early conceptus; and secondary oocyte. Human ortholog(s) of this gene implicated in primary ciliary dyskinesia 32. Orthologous to human RSPH3 (radial spoke head 3).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1700012G05Rik; 4930524H12Rik; A-kinase anchor protein RSPH3A; MGC183574; R74860; radial spoke head protein 3 homolog A; radial spoke head protein 3 homolog A-like; radial spoke head-like protein 2A; radial spokehead-like 2; radial spokehead-like 2A; Rs; Rshl2; Rshl2a
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39178,164,446 - 8,198,388 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl178,164,446 - 8,198,656 (+)EnsemblGRCm39 Ensembl
GRCm38177,945,614 - 7,979,556 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl177,945,614 - 7,979,824 (+)EnsemblGRCm38mm10GRCm38
MGSCv37178,138,479 - 8,172,421 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36177,784,157 - 7,817,660 (+)NCBIMGSCv36mm8
Celera177,474,283 - 7,474,984 (-)NCBICelera
Cytogenetic Map17A1NCBI
cM Map174.82NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cell projection  (IEA)
cilium  (IBA,ISO)
cytoplasm  (IEA)
cytoskeleton  (IEA)
motile cilium  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:2941441   PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:14610273   PMID:15782199   PMID:16141072  
PMID:16141073   PMID:16964442   PMID:17971504   PMID:18973680   PMID:21267068   PMID:21677750   PMID:21873635   PMID:25079589   PMID:26082196   PMID:29459677   PMID:31146259   PMID:34792097  


Genomics

Comparative Map Data
Rsph3a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39178,164,446 - 8,198,388 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl178,164,446 - 8,198,656 (+)EnsemblGRCm39 Ensembl
GRCm38177,945,614 - 7,979,556 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl177,945,614 - 7,979,824 (+)EnsemblGRCm38mm10GRCm38
MGSCv37178,138,479 - 8,172,421 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36177,784,157 - 7,817,660 (+)NCBIMGSCv36mm8
Celera177,474,283 - 7,474,984 (-)NCBICelera
Cytogenetic Map17A1NCBI
cM Map174.82NCBI
RSPH3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386158,962,980 - 159,000,202 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6158,972,871 - 159,000,202 (-)EnsemblGRCh38hg38GRCh38
GRCh376159,393,903 - 159,421,234 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366159,318,254 - 159,341,186 (-)NCBINCBI36Build 36hg18NCBI36
Build 346159,368,676 - 159,391,607NCBI
Celera6160,046,571 - 160,069,312 (-)NCBICelera
Cytogenetic Map6q25.3NCBI
HuRef6156,868,976 - 156,891,903 (-)NCBIHuRef
CHM1_16159,660,720 - 159,683,640 (-)NCBICHM1_1
T2T-CHM13v2.06160,212,959 - 160,245,813 (-)NCBIT2T-CHM13v2.0
Rsph3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8149,506,988 - 49,565,740 (-)NCBIGRCr8
mRatBN7.2147,101,961 - 47,155,201 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl147,101,961 - 47,154,232 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx147,665,045 - 47,703,111 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0153,652,529 - 53,690,574 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0147,740,516 - 47,778,582 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0147,412,151 - 47,478,924 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl147,426,258 - 47,477,524 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0148,729,556 - 48,780,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4141,313,530 - 41,336,537 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1141,316,470 - 41,370,068 (-)NCBI
Celera142,782,009 - 42,842,838 (-)NCBICelera
Cytogenetic Map1q11NCBI
Rsph3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554393,509,395 - 3,534,392 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554393,510,076 - 3,533,924 (+)NCBIChiLan1.0ChiLan1.0
RSPH3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25178,993,081 - 179,105,295 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16176,898,056 - 177,010,374 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06156,861,740 - 156,889,821 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16161,875,729 - 161,904,276 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6161,880,465 - 161,904,315 (-)Ensemblpanpan1.1panPan2
RSPH3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1148,329,171 - 48,349,924 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl148,329,211 - 48,349,088 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha149,171,625 - 49,192,001 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0148,513,493 - 48,534,673 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl148,513,534 - 48,534,213 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1148,389,455 - 48,409,743 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0148,260,340 - 48,280,628 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0148,819,818 - 48,840,110 (-)NCBIUU_Cfam_GSD_1.0
Rsph3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946143,313,711 - 143,341,249 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493648910,569,541 - 10,593,100 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493648910,568,736 - 10,592,912 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RSPH3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl18,244,040 - 8,265,659 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.118,243,177 - 8,265,816 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2110,141,811 - 10,149,319 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RSPH3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11386,562,453 - 86,582,483 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604058,957,000 - 58,976,458 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rsph3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624929661,495 - 682,072 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624929661,257 - 682,772 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rsph3a
914 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:120
Count of miRNA genes:118
Interacting mature miRNAs:120
Transcripts:ENSMUST00000097423
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357452Vtbt18_mvertebral trabecular bone trait 18 (mouse)Not determined17120975022Mouse
1302196Myaa1_mmodifier of Yaa 1 (mouse)Not determined17120975022Mouse
1357902Obq19_mobesity QTL 19 (mouse)Not determined17125662076Mouse
12910982Pifs2_mpeptide-induced fatal syndrome 2 (mouse)17126189355Mouse
1357743Lith3_mlithogenic gene 3 (mouse)Not determined17126194456Mouse
1301615Cfld3_mcystic fibrosis lung disease 3 (mouse)Not determined17127081639Mouse
1300613Pcyts4_mplasmacytoma susceptibility 4 (mouse)Not determined17127081639Mouse
1302100Circp2_mcircadian photosensitivity 2 (mouse)Not determined17129198453Mouse
12910527Nrq1a_mnoise-induced hearing loss resistant QTL 1a (mouse)17129198453Mouse
12910528Nrq1_mnoise-induced hearing loss resistant QTL 1 (mouse)17129198453Mouse
13524851Asrq8_macoustic startle response 8 (mouse)17131030170Mouse
10412276Leci2_mleukocyte endothelial cell interactions 2 (mouse)Not determined17334817537348299Mouse
1357680Idd23_minsulin dependent diabetes susceptibility 23 (mouse)Not determined17397489026401133Mouse
1300890Bhr3_mbronchial hyperresponsiveness 3 (mouse)Not determined17397489048866091Mouse
1301327Lmr7_mleishmaniasis resistance 7 (mouse)Not determined17485475227715939Mouse
4141215Mnic1_mmacronutrient intake, carbohydrate 1 (mouse)Not determined485475245670266Mouse
1300706Alan1_malloantigen response 1 (mouse)Not determined17485475246469702Mouse
1357789Kdnw3_mkidney weight 3 (mouse)Not determined17485475247885665Mouse
4141272Tfv1_mtotal food volume 1 (mouse)Not determined485475265637357Mouse
10043949Pbft7_mpercent body fat 7 (mouse)Not determined17689393640893936Mouse
4141608Phl1_mprogressive hearing loss 1 (mouse)Not determined17787584329487423Mouse

Markers in Region
Rshl2a  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38177,945,920 - 7,946,252UniSTSGRCm38
GRCm38176,948,029 - 6,948,415UniSTSGRCm38
MGSCv37177,152,378 - 7,152,764UniSTSGRCm37
MGSCv371728,322 - 28,654UniSTSGRCm37
MGSCv37178,138,785 - 8,139,117UniSTSGRCm37
Celera177,474,346 - 7,474,678UniSTS
Cytogenetic Map17A1UniSTS
cM Map17 UniSTS
RH125119  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38176,904,900 - 6,905,020UniSTSGRCm38
GRCm38177,979,217 - 7,979,337UniSTSGRCm38
MGSCv37178,172,082 - 8,172,202UniSTSGRCm37
MGSCv37177,109,249 - 7,109,369UniSTSGRCm37
Cytogenetic Map17A1UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000097423   ⟹   ENSMUSP00000095034
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,164,485 - 8,198,656 (+)Ensembl
GRCm38.p6 Ensembl177,945,653 - 7,979,824 (+)Ensembl
RefSeq Acc Id: ENSMUST00000231320
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,171,381 - 8,189,610 (+)Ensembl
GRCm38.p6 Ensembl177,952,549 - 7,970,778 (+)Ensembl
RefSeq Acc Id: ENSMUST00000231845
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,164,827 - 8,173,648 (+)Ensembl
GRCm38.p6 Ensembl177,945,995 - 7,954,816 (+)Ensembl
RefSeq Acc Id: ENSMUST00000231900   ⟹   ENSMUSP00000156196
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,189,054 - 8,198,237 (+)Ensembl
GRCm38.p6 Ensembl177,970,222 - 7,979,405 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232223   ⟹   ENSMUSP00000156325
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,164,446 - 8,198,656 (+)Ensembl
GRCm38.p6 Ensembl177,945,614 - 7,979,824 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232233
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,194,719 - 8,198,336 (+)Ensembl
GRCm38.p6 Ensembl177,975,887 - 7,979,504 (+)Ensembl
RefSeq Acc Id: ENSMUST00000232627
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl178,164,893 - 8,171,490 (+)Ensembl
GRCm38.p6 Ensembl177,946,061 - 7,952,658 (+)Ensembl
RefSeq Acc Id: NM_025789   ⟹   NP_080065
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39178,164,446 - 8,198,388 (+)NCBI
GRCm38177,945,614 - 7,979,556 (+)ENTREZGENE
MGSCv37178,138,479 - 8,172,421 (+)RGD
Celera177,474,283 - 7,474,984 (-)ENTREZGENE
cM Map17 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_080065 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI50664 (Get FASTA)   NCBI Sequence Viewer  
  BAB25385 (Get FASTA)   NCBI Sequence Viewer  
  BAE28425 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000095034
  ENSMUSP00000095034.3
  ENSMUSP00000156196.2
  ENSMUSP00000156325.2
GenBank Protein Q3UFY4 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_080065   ⟸   NM_025789
- UniProtKB: Q9D8J2 (UniProtKB/Swiss-Prot),   Q3UFY4 (UniProtKB/Swiss-Prot),   A0A338P7J7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000156196   ⟸   ENSMUST00000231900
RefSeq Acc Id: ENSMUSP00000156325   ⟸   ENSMUST00000232223
RefSeq Acc Id: ENSMUSP00000095034   ⟸   ENSMUST00000097423

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UFY4-F1-model_v2 AlphaFold Q3UFY4 1-516 view protein structure

Promoters
RGD ID:13674688
Promoter ID:EPDNEW_M21493
Type:initiation region
Name:Rsph3a_1
Description:Mus musculus radial spoke 3A homolog , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38177,945,593 - 7,945,653EPDNEW
RGD ID:6828641
Promoter ID:MM_KWN:22046
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   ES_Cell
Transcripts:ENSMUST00000097423
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36178,138,449 - 8,138,949 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1914082 AgrOrtholog
Ensembl Genes ENSMUSG00000073471 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000097423 ENTREZGENE
  ENSMUST00000097423.3 UniProtKB/Swiss-Prot
  ENSMUST00000231900.2 UniProtKB/TrEMBL
  ENSMUST00000232223.2 UniProtKB/TrEMBL
InterPro Radial_spoke_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:66832 UniProtKB/Swiss-Prot
MGD MGI:1914082 ENTREZGENE
NCBI Gene 66832 ENTREZGENE
PANTHER PTHR21648 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RADIAL SPOKE HEAD PROTEIN 3 HOMOLOG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Radial_spoke_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rsph3a PhenoGen
UniProt A0A338P6Z9_MOUSE UniProtKB/TrEMBL
  A0A338P7J7 ENTREZGENE, UniProtKB/TrEMBL
  B2RWQ9_MOUSE UniProtKB/TrEMBL
  Q3UFY4 ENTREZGENE
  Q9D8J2 ENTREZGENE
  RSH3A_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q9D8J2 UniProtKB/Swiss-Prot