Homer3 (homer scaffold protein 3) - Rat Genome Database

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Gene: Homer3 (homer scaffold protein 3) Rattus norvegicus
Analyze
Symbol: Homer3
Name: homer scaffold protein 3
RGD ID: 620706
Description: Predicted to enable several functions, including G protein-coupled glutamate receptor binding activity; identical protein binding activity; and protein C-terminus binding activity. Predicted to be involved in several processes, including G protein-coupled glutamate receptor signaling pathway; negative regulation of interleukin-2 production; and regulation of signal transduction. Predicted to be located in basal part of cell and cytosol. Predicted to be active in several cellular components, including dendrite; glutamatergic synapse; and postsynaptic density. Orthologous to human HOMER3 (homer scaffold protein 3); PARTICIPATES IN glutamate signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: homer homolog 3; homer homolog 3 (Drosophila); homer protein homolog 3; homer scaffolding protein 3; homer, neuronal immediate early gene, 3; homer-3; VASP/Ena-related gene up-regulated during seizure and LTP 3; Vesl-3
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
mRatBN7.21619,132,177 - 19,142,739 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1619,132,162 - 19,142,680 (-)Ensembl
Rnor_6.01620,880,447 - 20,890,968 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,881,518 - 20,890,949 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,732,220 - 20,742,730 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,617,526 - 19,624,915 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11619,617,523 - 19,624,913 (-)NCBI
Celera1619,323,520 - 19,330,908 (-)NCBICelera
Cytogenetic Map16p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Homer proteins regulate coupling of group I metabotropic glutamate receptors to N-type calcium and M-type potassium channels. Kammermeier PJ, etal., J Neurosci 2000 Oct 1;20(19):7238-45.
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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9808458   PMID:11418862   PMID:12477932   PMID:12860966   PMID:16098226   PMID:18218901   PMID:18480293   PMID:22486777   PMID:24530450   PMID:25416956   PMID:27890541   PMID:29476059  
PMID:31515488  


Genomics

Comparative Map Data
Homer3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21619,132,177 - 19,142,739 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1619,132,162 - 19,142,680 (-)Ensembl
Rnor_6.01620,880,447 - 20,890,968 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,881,518 - 20,890,949 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,732,220 - 20,742,730 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,617,526 - 19,624,915 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11619,617,523 - 19,624,913 (-)NCBI
Celera1619,323,520 - 19,330,908 (-)NCBICelera
Cytogenetic Map16p14NCBI
HOMER3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381918,929,201 - 18,941,217 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1918,929,201 - 18,941,261 (-)EnsemblGRCh38hg38GRCh38
GRCh371919,040,010 - 19,052,026 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361918,901,012 - 18,912,983 (-)NCBINCBI36hg18NCBI36
Build 341918,901,011 - 18,912,983NCBI
Celera1918,944,833 - 18,956,865 (-)NCBI
Cytogenetic Map19p13.11NCBI
HuRef1918,604,424 - 18,624,135 (-)NCBIHuRef
CHM1_11919,039,677 - 19,051,708 (-)NCBICHM1_1
T2T-CHM13v2.01919,064,989 - 19,077,017 (-)NCBI
Homer3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,735,529 - 70,747,011 (+)NCBIGRCm39mm39
GRCm39 Ensembl870,735,477 - 70,747,011 (+)Ensembl
GRCm38870,282,880 - 70,294,361 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,282,827 - 70,294,361 (+)EnsemblGRCm38mm10GRCm38
MGSCv37872,806,898 - 72,818,260 (+)NCBIGRCm37mm9NCBIm37
MGSCv36873,212,039 - 73,223,342 (+)NCBImm8
Celera872,839,497 - 72,850,859 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
Homer3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555242,755,367 - 2,760,198 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555242,754,970 - 2,760,198 (+)NCBIChiLan1.0ChiLan1.0
HOMER3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11919,374,442 - 19,386,161 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1919,374,442 - 19,385,392 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01918,367,191 - 18,379,454 (-)NCBIMhudiblu_PPA_v0panPan3
HOMER3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12044,179,145 - 44,186,814 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2044,179,153 - 44,186,814 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2044,094,561 - 44,102,222 (+)NCBI
ROS_Cfam_1.02044,666,088 - 44,673,749 (+)NCBI
UMICH_Zoey_3.12043,903,365 - 43,911,026 (+)NCBI
UNSW_CanFamBas_1.02044,313,573 - 44,321,234 (+)NCBI
UU_Cfam_GSD_1.02044,589,003 - 44,596,702 (+)NCBI
Homer3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118202,856,647 - 202,864,512 (+)NCBI
SpeTri2.0NW_0049365962,406,427 - 2,413,651 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOMER3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,913,979 - 58,922,475 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,913,949 - 58,922,474 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2258,714,495 - 58,721,277 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HOMER3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1617,385,176 - 17,396,506 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl617,385,175 - 17,394,319 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660741,926,336 - 1,937,877 (+)NCBIVero_WHO_p1.0
Homer3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249081,971,064 - 1,976,152 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046249081,970,739 - 1,977,750 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
RH128901  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,139,469 - 19,139,900 (+)MAPPERmRatBN7.2
Rnor_6.01620,887,739 - 20,888,169NCBIRnor6.0
Rnor_5.01620,739,512 - 20,739,942UniSTSRnor5.0
RGSC_v3.41619,623,747 - 19,624,177UniSTSRGSC3.4
Celera1619,329,741 - 19,330,171UniSTS
RH 3.4 Map1903.5UniSTS
Cytogenetic Map16p14UniSTS
RH137541  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,139,469 - 19,139,651 (+)MAPPERmRatBN7.2
Rnor_6.01620,887,739 - 20,887,920NCBIRnor6.0
Rnor_5.01620,739,512 - 20,739,693UniSTSRnor5.0
RGSC_v3.41619,623,747 - 19,623,928UniSTSRGSC3.4
Celera1619,329,741 - 19,329,922UniSTS
Cytogenetic Map16p14UniSTS
RH141855  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,133,307 - 19,133,498 (+)MAPPERmRatBN7.2
Rnor_6.01620,881,578 - 20,881,768NCBIRnor6.0
Rnor_5.01620,733,351 - 20,733,541UniSTSRnor5.0
RGSC_v3.41619,617,586 - 19,617,776UniSTSRGSC3.4
Celera1619,323,580 - 19,323,770UniSTS
RH 3.4 Map16219.93UniSTS
Cytogenetic Map16p14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8hepatic copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
631517Scl9Serum cholesterol level QTL 93.3blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)161572643321034895Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:107
Count of miRNA genes:95
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000027428
Prediction methods:Microtar, 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.


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 26 12 6 9 6 50 22 32 11
Low 3 17 45 35 10 35 8 11 24 13 9 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027428   ⟹   ENSRNOP00000027428
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,132,172 - 19,142,673 (-)Ensembl
Rnor_6.0 Ensembl1620,881,518 - 20,888,907 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000081977   ⟹   ENSRNOP00000068709
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1620,886,004 - 20,890,949 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000098457   ⟹   ENSRNOP00000091926
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,132,162 - 19,142,673 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108210   ⟹   ENSRNOP00000093275
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,132,186 - 19,142,673 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000120170   ⟹   ENSRNOP00000082420
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,139,546 - 19,142,680 (-)Ensembl
RefSeq Acc Id: NM_053310   ⟹   NP_445762
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,133,248 - 19,140,638 (-)NCBI
Rnor_6.01620,881,518 - 20,888,907 (-)NCBI
Rnor_5.01620,732,220 - 20,742,730 (-)NCBI
RGSC_v3.41619,617,526 - 19,624,915 (-)RGD
Celera1619,323,520 - 19,330,908 (-)RGD
Sequence:
RefSeq Acc Id: XM_006252890   ⟹   XP_006252952
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,180 - 19,142,739 (-)NCBI
Rnor_6.01620,880,447 - 20,890,968 (-)NCBI
Rnor_5.01620,732,220 - 20,742,730 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006252891   ⟹   XP_006252953
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,180 - 19,142,739 (-)NCBI
Rnor_6.01620,881,518 - 20,890,965 (-)NCBI
Rnor_5.01620,732,220 - 20,742,730 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771094   ⟹   XP_008769316
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,180 - 19,142,739 (-)NCBI
Rnor_6.01620,881,575 - 20,890,966 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008771095   ⟹   XP_008769317
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,180 - 19,142,739 (-)NCBI
Rnor_6.01620,881,575 - 20,890,966 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039094431   ⟹   XP_038950359
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,177 - 19,142,739 (-)NCBI
RefSeq Acc Id: XM_039094432   ⟹   XP_038950360
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,177 - 19,142,739 (-)NCBI
RefSeq Acc Id: XM_039094433   ⟹   XP_038950361
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,132,177 - 19,142,739 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_445762   ⟸   NM_053310
- UniProtKB: Q9Z2X5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252953   ⟸   XM_006252891
- Peptide Label: isoform X4
- UniProtKB: Q9Z2X5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006252952   ⟸   XM_006252890
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008769317   ⟸   XM_008771095
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008769316   ⟸   XM_008771094
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSRNOP00000068709   ⟸   ENSRNOT00000081977
RefSeq Acc Id: ENSRNOP00000027428   ⟸   ENSRNOT00000027428
RefSeq Acc Id: XP_038950361   ⟸   XM_039094433
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038950360   ⟸   XM_039094432
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038950359   ⟸   XM_039094431
- Peptide Label: isoform X5
RefSeq Acc Id: ENSRNOP00000091926   ⟸   ENSRNOT00000098457
RefSeq Acc Id: ENSRNOP00000082420   ⟸   ENSRNOT00000120170
RefSeq Acc Id: ENSRNOP00000093275   ⟸   ENSRNOT00000108210
Protein Domains
WH1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z2X5-F1-model_v2 AlphaFold Q9Z2X5 1-358 view protein structure

Transcriptome

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

Promoters
RGD ID:13700059
Promoter ID:EPDNEW_R10562
Type:initiation region
Name:Homer3_1
Description:homer scaffolding protein 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01620,890,925 - 20,890,985EPDNEW

Strain Variation

Strain Sequence Variants (MRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
16 20735217 20735218 G C snv F344/DuCrlCrlj (KyushuU), ZF (KyushuU)
16 20735223 20735224 C A snv F344/DuCrlCrlj (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620706 AgrOrtholog
BioCyc Gene G2FUF-11768 BioCyc
Ensembl Genes ENSRNOG00000020229 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000027428 ENTREZGENE
  ENSRNOP00000082420.1 UniProtKB/TrEMBL
  ENSRNOP00000091926 ENTREZGENE
  ENSRNOP00000091926.1 UniProtKB/TrEMBL
  ENSRNOP00000093275 ENTREZGENE
  ENSRNOP00000093275.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027428 ENTREZGENE
  ENSRNOT00000098457 ENTREZGENE
  ENSRNOT00000098457.1 UniProtKB/TrEMBL
  ENSRNOT00000108210 ENTREZGENE
  ENSRNOT00000108210.1 UniProtKB/TrEMBL
  ENSRNOT00000120170.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Homer UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homer_EVH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WH1/EVH1_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29548 UniProtKB/Swiss-Prot
NCBI Gene 29548 ENTREZGENE
PANTHER PTHR10918 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam WH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Homer3 PhenoGen
PROSITE WH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART WH1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6AH27_RAT UniProtKB/TrEMBL
  A0A8I6AJC0_RAT UniProtKB/TrEMBL
  A0A8I6G7E1_RAT UniProtKB/TrEMBL
  HOME3_RAT UniProtKB/Swiss-Prot
  Q6IRH2_RAT UniProtKB/TrEMBL
  Q9Z2X5 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-03-16 Homer3  homer scaffold protein 3  Homer3  homer scaffolding protein 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-02-25 Homer3  homer scaffolding protein 3  Homer3  homer homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Homer3  homer homolog 3 (Drosophila)    homer, neuronal immediate early gene, 3  Name updated 1299863 APPROVED
2002-08-07 Homer3  homer, neuronal immediate early gene, 3      Symbol and Name status set to provisional 70820 PROVISIONAL