Rsph1 (radial spoke head component 1) - Rat Genome Database

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Gene: Rsph1 (radial spoke head component 1) Rattus norvegicus
Analyze
Symbol: Rsph1
Name: radial spoke head component 1
RGD ID: 1307712
Description: Predicted to be involved in axoneme assembly and spermatid development. Predicted to be located in condensed nuclear chromosome; cytoplasm; and cytoskeleton. Predicted to be active in cytosol; motile cilium; and nucleus. Human ortholog(s) of this gene implicated in colorectal adenocarcinoma and primary ciliary dyskinesia 24. Orthologous to human RSPH1 (radial spoke head component 1); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC361818; radial spoke head 1 homolog; radial spoke head 1 homolog (Chlamydomonas); testis specific gene A2; Tsga2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2209,341,910 - 9,360,640 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl209,341,913 - 9,360,640 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2010,036,350 - 10,055,959 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0209,397,516 - 9,417,125 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0209,872,657 - 9,892,268 (-)NCBIRnor_WKY
Rnor_6.0209,998,698 - 10,020,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl209,998,701 - 10,013,559 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02012,177,325 - 12,195,013 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4209,633,454 - 9,648,045 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1209,633,683 - 9,648,273 (-)NCBI
Celera2010,862,990 - 10,880,137 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Impact of Genetic Variation in MicroRNA-binding Site on Susceptibility to Colorectal Cancer. Kang BW, etal., Anticancer Res. 2016 Jul;36(7):3353-61.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9578619   PMID:12477932   PMID:16780588   PMID:18453535   PMID:21630459   PMID:23993197  


Genomics

Comparative Map Data
Rsph1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2209,341,910 - 9,360,640 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl209,341,913 - 9,360,640 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2010,036,350 - 10,055,959 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0209,397,516 - 9,417,125 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0209,872,657 - 9,892,268 (-)NCBIRnor_WKY
Rnor_6.0209,998,698 - 10,020,719 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl209,998,701 - 10,013,559 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02012,177,325 - 12,195,013 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4209,633,454 - 9,648,045 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1209,633,683 - 9,648,273 (-)NCBI
Celera2010,862,990 - 10,880,137 (-)NCBICelera
Cytogenetic Map20p12NCBI
RSPH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382142,472,486 - 42,496,224 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2142,472,486 - 42,496,246 (-)EnsemblGRCh38hg38GRCh38
GRCh372143,892,596 - 43,916,334 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362142,765,665 - 42,789,470 (-)NCBINCBI36Build 36hg18NCBI36
Build 342142,765,667 - 42,789,470NCBI
Celera2129,041,548 - 29,065,352 (-)NCBICelera
Cytogenetic Map21q22.3NCBI
HuRef2129,310,006 - 29,333,663 (-)NCBIHuRef
CHM1_12143,453,405 - 43,477,251 (-)NCBICHM1_1
T2T-CHM13v2.02140,861,997 - 40,885,941 (-)NCBIT2T-CHM13v2.0
Rsph1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391731,473,993 - 31,496,270 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1731,473,993 - 31,496,357 (-)EnsemblGRCm39 Ensembl
GRCm381731,255,019 - 31,277,296 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1731,255,019 - 31,277,383 (-)EnsemblGRCm38mm10GRCm38
MGSCv371731,391,964 - 31,414,301 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361730,983,729 - 31,006,066 (-)NCBIMGSCv36mm8
Celera1732,172,383 - 32,194,815 (-)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1715.94NCBI
Rsph1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540739,266,888 - 39,284,972 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540739,266,888 - 39,284,972 (+)NCBIChiLan1.0ChiLan1.0
RSPH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12142,098,212 - 42,121,610 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2142,098,212 - 42,121,610 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02128,779,994 - 28,804,130 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
RSPH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13136,771,829 - 36,811,067 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3136,789,571 - 36,812,050 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3135,930,592 - 35,961,848 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03136,296,181 - 36,327,630 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3136,287,731 - 36,327,805 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13136,188,790 - 36,220,101 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03136,169,481 - 36,200,749 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03136,664,444 - 36,695,969 (-)NCBIUU_Cfam_GSD_1.0
Rsph1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497136,044,428 - 36,065,355 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365001,402,219 - 1,423,509 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365001,402,289 - 1,423,398 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RSPH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13205,808,671 - 205,827,213 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113205,808,923 - 205,827,098 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RSPH1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1286,348,365 - 86,371,908 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl286,348,056 - 86,371,858 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605414,315,382 - 14,340,800 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Rsph1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474528,008,959 - 28,021,529 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474528,009,028 - 28,020,007 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Rsph1
150 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:103
Count of miRNA genes:90
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000001542
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20669170617489458Rat
1581577Pur15Proteinuria QTL 154.380.0002urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20804241017617956Rat
4889870Pur30Proteinuria QTL 30190.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20804241029322208Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20903971913461775Rat

Markers in Region
AW433836  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2209,341,953 - 9,342,105 (+)MAPPERmRatBN7.2
Rnor_6.0209,998,742 - 9,998,893NCBIRnor6.0
Rnor_5.02012,177,369 - 12,177,520UniSTSRnor5.0
RGSC_v3.4209,633,498 - 9,633,649UniSTSRGSC3.4
Celera2010,863,034 - 10,863,185UniSTS
RH 3.4 Map20114.77UniSTS
Cytogenetic Map20p12UniSTS
Rsph1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2209,350,397 - 9,351,038 (+)MAPPERmRatBN7.2
Rnor_6.02010,007,185 - 10,007,825NCBIRnor6.0
Rnor_5.02012,185,781 - 12,186,421UniSTSRnor5.0
RGSC_v3.4209,642,040 - 9,642,680UniSTSRGSC3.4
Celera2010,871,444 - 10,872,084UniSTS
Cytogenetic Map20p12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 10 7
Low 3 24 15 6 10 6 74 35 31 4
Below cutoff 18 38 31 9 31 5 6 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000084726   ⟹   ENSRNOP00000073201
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl209,341,913 - 9,360,640 (-)Ensembl
Rnor_6.0 Ensembl209,998,701 - 10,013,190 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000089112   ⟹   ENSRNOP00000074661
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl209,341,913 - 9,360,586 (-)Ensembl
Rnor_6.0 Ensembl2010,000,543 - 10,013,245 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000091623   ⟹   ENSRNOP00000073848
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl209,343,890 - 9,356,778 (-)Ensembl
Rnor_6.0 Ensembl209,998,849 - 10,013,559 (-)Ensembl
RefSeq Acc Id: NM_001012176   ⟹   NP_001012176
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2209,341,910 - 9,360,640 (-)NCBI
Rnor_6.0209,998,698 - 10,020,719 (-)NCBI
Rnor_5.02012,177,325 - 12,195,013 (-)NCBI
RGSC_v3.4209,633,454 - 9,648,045 (-)RGD
Celera2010,862,990 - 10,880,137 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001012176 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH84704 (Get FASTA)   NCBI Sequence Viewer  
  EDL97009 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001012176   ⟸   NM_001012176
- UniProtKB: Q5XFW9 (UniProtKB/TrEMBL),   F1LRG8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074661   ⟸   ENSRNOT00000089112
RefSeq Acc Id: ENSRNOP00000073201   ⟸   ENSRNOT00000084726
RefSeq Acc Id: ENSRNOP00000073848   ⟸   ENSRNOT00000091623

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K8M2-F1-model_v2 AlphaFold A0A0G2K8M2 1-316 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307712 AgrOrtholog
BioCyc Gene G2FUF-4320 BioCyc
Ensembl Genes ENSRNOG00000057862 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000073201 ENTREZGENE
  ENSRNOP00000073201.2 UniProtKB/TrEMBL
  ENSRNOP00000073848.2 UniProtKB/TrEMBL
  ENSRNOP00000074661.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000084726 ENTREZGENE
  ENSRNOT00000084726.2 UniProtKB/TrEMBL
  ENSRNOT00000089112.2 UniProtKB/TrEMBL
  ENSRNOT00000091623.2 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7301243 IMAGE-MGC_LOAD
InterPro MORN UniProtKB/TrEMBL
KEGG Report rno:361818 UniProtKB/TrEMBL
MGC_CLONE MGC:105519 IMAGE-MGC_LOAD
NCBI Gene 361818 ENTREZGENE
Pfam MORN UniProtKB/TrEMBL
PhenoGen Rsph1 PhenoGen
SMART MORN UniProtKB/TrEMBL
UniProt A0A0G2K6K4_RAT UniProtKB/TrEMBL
  A0A0G2K8M2_RAT UniProtKB/TrEMBL
  F1LRG8 ENTREZGENE
  Q5XFW9 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary A0A0G2K4W7 UniProtKB/TrEMBL
  F1LRG8 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-07-20 Rsph1  radial spoke head component 1  Rsph1  radial spoke head 1 homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-04-13 Rsph1  radial spoke head 1 homolog  Rsph1  radial spoke head 1 homolog (Chlamydomonas)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Rsph1  radial spoke head 1 homolog (Chlamydomonas)  Tsga2  testis specific gene A2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Tsga2  testis specific gene A2  Tsga2_predicted  testis specific gene A2 (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Tsga2_predicted  testis specific gene A2 (predicted)      Symbol and Name status set to approved 70820 APPROVED