Htr5b (5-hydroxytryptamine (serotonin) receptor 5B) - Rat Genome Database

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Gene: Htr5b (5-hydroxytryptamine (serotonin) receptor 5B) Rattus norvegicus
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Symbol: Htr5b
Name: 5-hydroxytryptamine (serotonin) receptor 5B
RGD ID: 62388
Description: Enables G protein-coupled receptor binding activity. Predicted to be involved in G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger; adenylate cyclase-inhibiting serotonin receptor signaling pathway; and chemical synaptic transmission. Predicted to be located in membrane and synapse. Predicted to be active in dendrite and plasma membrane; PARTICIPATES IN calcium/calcium-mediated signaling pathway; INTERACTS WITH 1,3,5-trinitro-1,3,5-triazinane; 4,4'-sulfonyldiphenol; 5-carboxamidotryptamine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 5-HT-5B; 5-HT5B; 5-hydroxytryptamine receptor; 5-hydroxytryptamine receptor 5B; 5Ht5b; MR22; REC17; serotonin receptor 5B
RGD Orthologs
Mouse
Alliance Orthologs
More Info more info ...
Candidate Gene For: Activ2
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81335,239,662 - 35,252,586 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1335,239,662 - 35,252,586 (-)EnsemblGRCr8
mRatBN7.21332,686,911 - 32,699,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1332,687,042 - 32,699,835 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1335,256,027 - 35,268,699 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01336,543,916 - 36,556,582 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01333,818,446 - 33,831,088 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1334,623,584 - 34,636,179 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1334,817,672 - 34,830,267 (-)NCBILyon_Normotensive
Lyon_Hypertensive1334,804,973 - 34,817,568 (-)NCBILyon_Hypertensive
F344_StmMcwi1334,722,942 - 34,735,608 (-)NCBIF344_StmMcwi
Rnor_6.01337,479,758 - 37,492,680 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1337,479,758 - 37,492,680 (-)Ensemblrn6Rnor6.0
Rnor_5.01342,637,590 - 42,650,516 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41333,545,128 - 33,558,050 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1332,554,403 - 32,567,195 (-)NCBICelera
RGSC_v3.11333,548,378 - 33,561,305 (-)NCBI
Cytogenetic Map13q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
dendrite  (IBA)
membrane  (IEA)
plasma membrane  (IBA,IEA,ISS)
synapse  (IEA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Two members of a distinct subfamily of 5-hydroxytryptamine receptors differentially expressed in rat brain. Erlander MG, etal., Proc Natl Acad Sci U S A 1993 Apr 15;90(8):3452-6.
2. 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.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Localization of 54 rat genes, and definition of new synteny groups conserved in the human and the rat. Szpirer C, etal., Mamm Genome 2000 Sep;11(9):729-35
10. Cloning and characterization of the rat 5-HT5B receptor. Evidence that the 5-HT5B receptor couples to a G protein in mammalian cell membranes. Wisden W, etal., FEBS Lett. 1993 Oct 25;333(1-2):25-31.
Additional References at PubMed
PMID:14618677  


Genomics

Comparative Map Data
Htr5b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81335,239,662 - 35,252,586 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1335,239,662 - 35,252,586 (-)EnsemblGRCr8
mRatBN7.21332,686,911 - 32,699,835 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1332,687,042 - 32,699,835 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1335,256,027 - 35,268,699 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01336,543,916 - 36,556,582 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01333,818,446 - 33,831,088 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd1334,623,584 - 34,636,179 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive1334,817,672 - 34,830,267 (-)NCBILyon_Normotensive
Lyon_Hypertensive1334,804,973 - 34,817,568 (-)NCBILyon_Hypertensive
F344_StmMcwi1334,722,942 - 34,735,608 (-)NCBIF344_StmMcwi
Rnor_6.01337,479,758 - 37,492,680 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1337,479,758 - 37,492,680 (-)Ensemblrn6Rnor6.0
Rnor_5.01342,637,590 - 42,650,516 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41333,545,128 - 33,558,050 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1332,554,403 - 32,567,195 (-)NCBICelera
RGSC_v3.11333,548,378 - 33,561,305 (-)NCBI
Cytogenetic Map13q11NCBI
Htr5b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391121,437,487 - 121,458,351 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1121,437,571 - 121,456,194 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381121,509,758 - 121,529,312 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1121,509,842 - 121,528,465 (-)Ensemblmm10GRCm38
MGSCv371123,406,335 - 123,425,042 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361123,337,304 - 123,356,011 (-)NCBIMGSCv36mm8
Celera1124,150,810 - 124,169,621 (-)NCBICelera
Cytogenetic Map1E2.3NCBI
cM Map152.98NCBI

Variants

.
Variants in Htr5b
60 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:80
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000003441
Prediction methods:Miranda, Rnahybrid, Targetscan
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589141Insul28Insulin level QTL 2810.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)131186625456866254Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132485392569853925Rat
1300163Cardf1Cardiac cell morphology QTL 14.18aorta morphology trait (VT:0000272)artery lesion measurement (CMO:0000975)131244842147969993Rat
2317040Aia21Adjuvant induced arthritis QTL 212.75joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131238432057384320Rat
631645Bp121Blood pressure QTL 1213.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131746828262468282Rat
2303030Bp327Blood pressure QTL 327arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)13143736554Rat
2317046Aia8Adjuvant induced arthritis QTL 83.9700000286102295joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)131238432057384320Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13742179187286911Rat
61339Bp24Blood pressure QTL 240.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13600200847359539Rat
1331784Bp222Blood pressure QTL 2222.944arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)132433543255601132Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
2302275Gluco37Glucose level QTL 373.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)131244842148744906Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132624480871244808Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133379409678794096Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133483494779834947Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
2301962Cm72Cardiac mass QTL 724.12heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)133379409660914504Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)13308875548088755Rat
631672Iddm12Insulin dependent diabetes mellitus QTL 122.20.0032blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)13600200837088115Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132624480871244808Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
9589164Gluco66Glucose level QTL 666.670.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)131771133662711336Rat
7411662Foco29Food consumption QTL 2920.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)131186625456866254Rat

Markers in Region
RH94831  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21332,687,240 - 32,687,491 (+)MAPPERmRatBN7.2
Rnor_6.01337,480,088 - 37,480,338NCBIRnor6.0
Rnor_5.01342,637,920 - 42,638,170UniSTSRnor5.0
RGSC_v3.41333,545,458 - 33,545,708UniSTSRGSC3.4
Celera1332,554,733 - 32,554,983UniSTS
Cytogenetic Map13p12UniSTS
RH94832  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81335,239,780 - 35,240,082 (+)Marker Load Pipeline
mRatBN7.21332,687,029 - 32,687,331 (+)MAPPERmRatBN7.2
Rnor_6.01337,479,877 - 37,480,178NCBIRnor6.0
Rnor_5.01342,637,709 - 42,638,010UniSTSRnor5.0
RGSC_v3.41333,545,247 - 33,545,548UniSTSRGSC3.4
Celera1332,554,522 - 32,554,823UniSTS
Cytogenetic Map13p12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
13 12 40 153 60 59 28 30 28 6 217 97 5 133 71 80 31 16 16

Sequence


Ensembl Acc Id: ENSRNOT00000003441   ⟹   ENSRNOP00000003441
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1335,239,662 - 35,252,586 (-)Ensembl
mRatBN7.2 Ensembl1332,687,042 - 32,699,835 (-)Ensembl
Rnor_6.0 Ensembl1337,479,758 - 37,492,680 (-)Ensembl
RefSeq Acc Id: NM_024395   ⟹   NP_077371
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81335,239,662 - 35,252,586 (-)NCBI
mRatBN7.21332,686,911 - 32,699,835 (-)NCBI
Dahl_SR_JrHsd1334,623,584 - 34,636,179 (-)NCBI
Lyon_Normotensive1334,817,672 - 34,830,267 (-)NCBI
Lyon_Hypertensive1334,804,973 - 34,817,568 (-)NCBI
F344_StmMcwi1334,722,942 - 34,735,608 (-)NCBI
Rnor_6.01337,479,758 - 37,492,680 (-)NCBI
Rnor_5.01342,637,590 - 42,650,516 (-)NCBI
RGSC_v3.41333,545,128 - 33,558,050 (-)RGD
Celera1332,554,403 - 32,567,195 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_077371 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA40616 (Get FASTA)   NCBI Sequence Viewer  
  EDL87953 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000003441
  ENSRNOP00000003441.3
GenBank Protein P35365 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_077371   ⟸   NM_024395
- UniProtKB: P35365 (UniProtKB/Swiss-Prot),   A6K808 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000003441   ⟸   ENSRNOT00000003441
Protein Domains
G-protein coupled receptors family 1 profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P35365-F1-model_v2 AlphaFold P35365 1-370 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:62388 AgrOrtholog
BioCyc Gene G2FUF-18497 BioCyc
Ensembl Genes ENSRNOG00000002549 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000003441 ENTREZGENE
  ENSRNOT00000003441.6 UniProtKB/Swiss-Prot
Gene3D-CATH Rhodopsin 7-helix transmembrane proteins UniProtKB/Swiss-Prot
InterPro 5HT5B_rcpt UniProtKB/Swiss-Prot
  5HT_rcpt UniProtKB/Swiss-Prot
  GPCR_Rhodpsn UniProtKB/Swiss-Prot
  GPCR_Rhodpsn_7TM UniProtKB/Swiss-Prot
KEGG Report rno:79247 UniProtKB/Swiss-Prot
NCBI Gene 79247 ENTREZGENE
PANTHER 5-HYDROXYTRYPTAMINE RECEPTOR 5A UniProtKB/Swiss-Prot
  ADRENERGIC RECEPTOR-RELATED G-PROTEIN COUPLED RECEPTOR UniProtKB/Swiss-Prot
Pfam 7tm_1 UniProtKB/Swiss-Prot
PhenoGen Htr5b PhenoGen
PRINTS 5HT5BRECEPTR UniProtKB/Swiss-Prot
  5HTRECEPTOR UniProtKB/Swiss-Prot
  GPCRRHODOPSN UniProtKB/Swiss-Prot
PROSITE G_PROTEIN_RECEP_F1_1 UniProtKB/Swiss-Prot
  G_PROTEIN_RECEP_F1_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000002549 RatGTEx
SMART 7TM_GPCR_Srsx UniProtKB/Swiss-Prot
Superfamily-SCOP Family A G protein-coupled receptor-like UniProtKB/Swiss-Prot
UniProt 5HT5B_RAT UniProtKB/Swiss-Prot
  A6K808 ENTREZGENE, UniProtKB/TrEMBL
  P35365 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Htr5b  5-hydroxytryptamine (serotonin) receptor 5B      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference