Swd6 QTL Report (Rattus norvegicus) - 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 Behavioral & Substance Use Disorder 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 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
Advanced Search (OLGA)
QTL Registration

QTL: Swd6 (Spike wave discharge measurement QTL 6) Rattus norvegicus

Symbol: Swd6
Name: Spike wave discharge measurement QTL 6
RGD ID: 9685065
Previously known as: Agkr1; amygdala kindling rate 1
Trait: brain electrophysiology trait   (VT:0010557)    
Measurement Type: brain spike-and-wave discharge rate   (CMO:0001739)    
LOD Score: 5.8
P Value: 0.01
Variance: Not Available
Position
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8240,957,423 - 50,526,673RGD_MAPPER_PIPELINE
mRatBN7.2239,223,937 - 48,793,699RGD_MAPPER_PIPELINEmRatBN7.2
Rnor_6.0238,990,848 - 49,401,197RGD_MAPPER_PIPELINERnor_6.0
Rnor_5.0258,081,307 - 67,772,387RGD_MAPPER_PIPELINERnor_5.0
RGSC_v3.4238,950,746 - 48,784,475RGD_MAPPER_PIPELINERGSC_v3.4
Cross Type: Not Available
Strains Crossed: LEXF10C/Stm 



Disease Annotations     Click to see Annotation Detail View

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

Experimental Condition

Measurement Method

Vertebrate Trait

Rat Strain
LEXF10C/Stm  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Identification of QTLs involved in the development of amygdala kindling in the rat. Hashimoto R, etal., Exp Anim. 2013;62(3):181-7.

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
1306624Zswim6zinc finger, SWIM-type containing 624094461741112340Rat
41167126LOC120100700uncharacterized LOC12010070024112528341133896Rat
41019158LOC120100701uncharacterized LOC12010070124117095341180815Rat
7567902LOC102549347uncharacterized LOC10254934724122741641261624Rat
41204573LOC120100702uncharacterized LOC12010070224122809941233197Rat
2324600Smim15small integral membrane protein 1524126171041266870Rat
1560158Ndufaf2NADH:ubiquinone oxidoreductase complex assembly factor 224126914141380895Rat
402390108LOC134485832uncharacterized LOC13448583224134330441346031Rat
1311570Ercc8ERCC excision repair 8, CSA ubiquitin ligase complex subunit24138090141418294Rat
41213703LOC12010055760S ribosomal protein L29-like24144863141450329Rat
1560076Rpl29-ps23ribosomal protein L29, pseudogene 2324145375541454394Rat
41036237Egln1-ps5egl-9 family hypoxia-inducible factor 1, pseudogene 524148184341483450Rat
1310560Elovl7ELOVL fatty acid elongase 724152269541592021Rat
402293527LOC134485833uncharacterized LOC13448583324156793041583122Rat
11419093LOC108350211uncharacterized LOC10835021124158331541588814Rat
1305799Depdc1bDEP domain containing 1B24160568641697207Rat
3281Pde4dphosphodiesterase 4D24174833743262567Rat
41308577LOC120101083uncharacterized LOC12010108324198995642021083Rat
40993190Trnav-aac36transfer RNA valine (anticodon AAC) 3624233707042337150Rat
2325413Mir582microRNA 58224266195442662034Rat
11487276LOC108350210uncharacterized LOC10835021024275346342766347Rat
41368707LOC120101082uncharacterized LOC12010108224279336842824396Rat
41024273LOC120101084uncharacterized LOC12010108424304682743110859Rat
11451820LOC108349943uncharacterized LOC10834994324331984943324337Rat
620923Rab3cRAB3C, member RAS oncogene family24335382243577226Rat
1586621GaptGrb2-binding adaptor protein, transmembrane24366090043665485Rat
620760Plk2polo-like kinase 224370253643708305Rat
1585493Slc25a5-ps7solute carrier family 25 member 5, pseudogene 724383602043836926Rat
402087979LOC134485834uncharacterized LOC13448583424440832644413735Rat
9436047LOC103691451uncharacterized LOC10369145124445846444467124Rat
1560402Pgk1l1phosphoglycerate kinase 1 like 124448798044489330Rat
1309504Actbl2actin, beta-like 224459139144594138Rat
1305492Gpbp1GC-rich promoter binding protein 124475686144824281Rat
41081966Trnap-agg68transfer RNA proline (anticodon AGG) 6824493183444931914Rat
402206270LOC134485835uncharacterized LOC13448583524495566744975710Rat
1311241Mier3MIER family member 324502116745049745Rat
9201190LOC103691453activated RNA polymerase II transcriptional coactivator p15 pseudogene24503227345033679Rat
2318781Setd9-ps1SET domain containing, pseudogene 124505268245056085Rat
402299303LOC134485836uncharacterized LOC13448583624505880145060920Rat
620966Map3k1mitogen-activated protein kinase kinase kinase 124508188945150555Rat
7683682LOC102553935uncharacterized LOC10255393524515326945170016Rat
7736543LOC102554057uncharacterized LOC10255405724523006445237701Rat
402278768LOC134485837uncharacterized LOC13448583724524404245283700Rat
7606174LOC102554307uncharacterized LOC10255430724538093245427955Rat
1307735Ankrd55ankyrin repeat domain 5524561701145717086Rat
9208714LOC103691456uncharacterized LOC10369145624562579645688922Rat
41109932LOC120100706uncharacterized LOC12010070624576636145791001Rat
41132845LOC120101181U6 spliceosomal RNA24576750245767609Rat
2903Il6stinterleukin 6 cytokine family signal transducer24579887245839501Rat
402292970LOC134485838uncharacterized LOC13448583824583650845840284Rat
1586478Il31rainterleukin 31 receptor A24585107345922300Rat
9469491LOC103691462serine/arginine-rich splicing factor 3 pseudogene24586283445864477Rat
1308793Ddx4DEAD-box helicase 424596117446016097Rat
1311881Slc38a9solute carrier family 38, member 924602473146102419Rat
7637192Hnrnpr-ps1heterogeneous nuclear ribonucleoprotein R, pseudogene 124607077846073795Rat
41068271LOC120100707uncharacterized LOC12010070724614578846160914Rat
621832Plpp1phospholipid phosphatase 124617220246233632Rat
1305984MtrexMtr4 exosome RNA helicase24623352846293827Rat
2318361Dhx29DExH-box helicase 2924629390146344652Rat
1565217Ccnocyclin O24636407446367113Rat
1584164Mcidasmulticiliate differentiation and DNA synthesis associated cell cycle protein24637001746377747Rat
402059893LOC134485840uncharacterized LOC13448584024639144846398499Rat
402377254LOC134485839uncharacterized LOC13448583924639834546405833Rat
4888547Mir449cmicroRNA 449c24640237546402473Rat
2325536Mir449amicroRNA 449a24640391046404000Rat
1307506Gpx8glutathione peroxidase 824640964646413401Rat
628640Gzmagranzyme A24647376346485696Rat
68401Gzmkgranzyme K24657399746582015Rat
402125921LOC134485841uncharacterized LOC13448584124660523646608676Rat
71013Esm1endothelial cell-specific molecule 124660925346617991Rat
1561161Cspg4bchondroitin sulfate proteoglycan 4B24667314246743288Rat
41305934LOC120100709uncharacterized LOC12010070924675591646784015Rat
402220336LOC134485842uncharacterized LOC13448584224680268946816666Rat
40973599Rpl32-ps16ribosomal protein L32, pseudogene 1624683208146837340Rat
41308381Pfdn2-ps1prefoldin subunit 2, pseudogene 124685803546858498Rat
402064232LOC134485843uncharacterized LOC13448584324687251246875164Rat
41010767LOC120100712uncharacterized LOC12010071224688770646915779Rat
402225907LOC134485597uncharacterized LOC13448559724693191746934267Rat
402047024LOC134485596uncharacterized LOC13448559624693848446942274Rat
1310367Snx18sorting nexin 1824696549846991516Rat
11474944LOC108349945uncharacterized LOC10834994524700222747007306Rat
68345Hspb3heat shock protein family B (small) member 324702845147029165Rat
41232818LOC120100714uncharacterized LOC12010071424705642847128037Rat
2323540LOC100359700eukaryotic translation initiation factor 1-like24712453647125524Rat
1594505Nop16-ps4NOP16 nucleolar protein, pseudogene 424713804547139860Rat
1597407Arl15ARF like GTPase 1524717137747555666Rat
2324334Blvra-ps1biliverdin reductase A, pseudogene 124717158847273576Rat
41401973LOC120100716uncharacterized LOC12010071624747276247506146Rat
1594380Ndufs4NADH:ubiquinone oxidoreductase subunit S424768442047794914Rat
41168552Trnat-agu8transfer RNA threonine (anticodon AGU) 824773086147730933Rat
2633Fstfollistatin24785634547863670Rat
40991465LOC120100717uncharacterized LOC12010071724786119347863655Rat
9411836LOC103691459uncharacterized LOC10369145924803512448046558Rat
402161613LOC134485776developmental pluripotency-associated protein 4-like24807597548077397Rat
1359477Mocs2molybdenum cofactor synthesis 224823765548249394Rat
621632Itga2integrin subunit alpha 224825341248354509Rat
41117892LOC120101248small nucleolar RNA SNORA4424834991048350014Rat
2923Itga1integrin subunit alpha 124837918148545336Rat
1359591Pelopelota mRNA surveillance and ribosome rescue factor24853090248532670Rat
41072327Rnu6-985RNA, U6 small nuclear 98524856098448561089Rat
1594504Mfap1a-ps1microfibrillar-associated protein 1A, pseudogene 124862565948626945Rat
402006031LOC134485844uncharacterized LOC13448584424903363849042349Rat
7637193Rpl29-ps16ribosomal protein L29, pseudogene 1624920383749204823Rat
9476424Rpl39l5ribosomal protein L39 like 524920545649205608Rat
402055322LOC134485845uncharacterized LOC13448584524942800949429497Rat
402053478LOC134485846uncharacterized LOC13448584624965879249664373Rat
11387679LOC108349948uncharacterized LOC10834994824966408249682198Rat
40942807Rnu6-572RNA, U6 small nuclear 57224973228949732394Rat
61957Isl1ISL LIM homeobox 124981361849823442Rat
41185079LOC120101129U4 spliceosomal RNA24987307749873203Rat
402332281LOC134485777pescadillo homolog25035736750361358Rat
1587384Parp8poly (ADP-ribose) polymerase family, member 825040840450581513Rat

Markers in Region
The following Markers overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolExpected SizeChrStartStopSpeciesMatch
10602D2Wox1315424786375647863910Ratregion
34397D2Mgh214524180136341801508Ratregion
36071D2Rat1516824887094048871108Ratregion
37018D2Rat1413124453797944538110Ratregion
35941D2Rat1215324110784941108002Ratregion
39668D2Rat25425224564093345641185Ratregion
38064D2Rat15320424451985144520055Ratregion
40446D2Rat29815324613845646138609Ratregion
38476D2Rat14210924432457644324685Ratregion
39460D2Rat20012225050616250506284Ratregion
41158D2Rat19726024180125441801514Ratregion
42564D2Rat31210624119546741195573Ratregion
42566D2Rat26712324562198045622103Ratregion
42571D2Rat31522425049706550497289Ratregion
41538D2Rat19914324297738642977529Ratregion
43487D2Got2613424440909244409226Ratregion
43489D2Got18118624468007044680256Ratregion
43491D2Got2819024724198247242172Ratregion
43492D2Wox515624773617547736331Ratregion
60793D2Wox310424490435544904459Ratregion
60795D2Wox49324490428644904379Ratregion
60750D2Rat31710624288345542883561Ratregion
61289D2Mco1918724119666141196848Ratregion
66383D2Mco4226924678402746784296Ratregion
66652D2Mco1324624735643547356681Ratregion
1631944D2Wox3023524985893449859169Ratregion
1639820D2Got42912324967742649677549Ratregion
9685045rs6569782024095742340957423Ratregion
9685054rs105606024025052667350526673Ratregion
7387293rs816096124661781346617813Ratregion
5025646RH12911518424141768641417870Ratregion
5053815RH14286615224332418843324340Ratregion
5057231D2Uwm423824885885848859096Ratregion
505166913.MMHAP86FRE7.seq18424287456842874752Ratregion
5045162RH13101921424579524545795459Ratregion
5040504RH12832120624583909945839305Ratregion
9685048rs105751187024157898141578981Ratregion
5079832RH14122916524335392843354093Ratregion
5077920RH14003621124838272548382936Ratregion
5067330AU04781925924808699248087251Ratregion
5068096AU04735018824154226141542449Ratregion
5068376AU04718414324155313441553277Ratregion
5069616AU04638022524533560745335832Ratregion
5062548BI28898517124585720445857375Ratregion
Position Markers

Flank 1: (rs65697820)
Rat AssemblyChrPosition (strand)Source
GRCr8240,957,423 - 40,957,423RGD
mRatBN7.2239,223,937 - 39,223,937RGD
Rnor_6.0238,990,848 - 38,990,848RGD
Celera235,068,828 - 35,068,828RGD
Peak: (rs105751187)
Rat AssemblyChrPosition (strand)Source
GRCr8241,578,981 - 41,578,981RGD
mRatBN7.2239,845,534 - 39,845,534RGD
Rnor_6.0240,384,521 - 40,384,521RGD
Celera235,685,673 - 35,685,673RGD
Flank 2: (rs105606024)
Rat AssemblyChrPosition (strand)Source
GRCr8250,526,673 - 50,526,673RGD
mRatBN7.2248,793,699 - 48,793,699RGD
Rnor_6.0249,401,197 - 49,401,197RGD
Celera244,518,768 - 44,518,768RGD


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10755430Coatc6Coat color QTL 60.02576coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)21332504158325041Rat
7387318Stl32Serum triglyceride level QTL 323.20.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)22411781369117813Rat
10755436Coatc8Coat color QTL 80.02431coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)23675034481750344Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)220695736231474293Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2142977529Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2615276751152767Rat
1300160Hrtrt3Heart rate QTL 33.62heart pumping trait (VT:2000009)absolute change in heart rate (CMO:0000534)23561408353462005Rat
1579916Bp270Blood pressure QTL 2700.003arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)21605188361051883Rat
731167Glom4Glomerulus QTL 42.40.0082kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)22203804467038044Rat
731166Mamtr2Mammary tumor resistance QTL 20.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2962358154623581Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328206613235Rat
152025242Bw191Body weight QTL 1913.62body mass (VT:0001259)240306867124537199Rat
1302794Stl27Serum triglyceride level QTL 274.40.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)227148328145807373Rat
9685065Swd6Spike wave discharge measurement QTL 65.80.01brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge rate (CMO:0001739)24095742350526673Rat
9590095Sffal3Serum free fatty acids level QTL 36.780.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)22888999173889991Rat
70174BpQTLCluster2Blood pressure QTL cluster 24.24arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)241801363104744824Rat
1331764Bp205Blood pressure QTL 2053.476arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)21436870759368707Rat
1358901Cm38Cardiac mass QTL 382heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
631208Bw1Body weight QTL15.09mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)24490435585286097Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2962358144538110Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
1358899Kidm23Kidney mass QTL 233.88kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
1358908Bw49Body weight QTL 493.36body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
1300155Bp174Blood pressure QTL 1744.09arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)244537979112567334Rat
2293835Kiddil5Kidney dilation QTL 53.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979159440891Rat
1358910Kidm27Kidney mass QTL 275.77kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)27605533104774005Rat
1358911Kidm28Kidney mass QTL 285.42kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)247856345205135428Rat
1358904Cm39Cardiac mass QTL 392.26heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)227148328159440891Rat
1354617Bp240Blood pressure QTL 2404arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22865266683465677Rat
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2573632550736325Rat
2293843Kiddil6Kidney dilation QTL 63.1kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)244537979184731399Rat
1358887Bw50Body weight QTL 502.39body mass (VT:0001259)body weight (CMO:0000012)227148557159440760Rat
2306903Bp336Blood pressure QTL 3360.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)238426449111295694Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)244537979205135428Rat
2290453Scl55Serum cholesterol level QTL 552.83blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)228652666139067443Rat
152025206Hrtrt23Heart rate QTL 235.98heart pumping trait (VT:2000009)230219200171802126Rat
1358894Kidm24Kidney mass QTL 244.03kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)227148328159440891Rat
731184Mamtr4Mammary tumor resistance QTL 40.0003mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)21822713763227137Rat
152025204Hrtrt22Heart rate QTL 225.6heart pumping trait (VT:2000009)230219200171802126Rat
61371Edpm1Estrogen-dependent pituitary mass QTL 140.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)23686864381868643Rat
1354601Slep1Serum leptin concentration QTL 15.39blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)24490435589904355Rat
1582246Cm60Cardiac mass QTL 605.8heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)23326999678269996Rat
1354603Bp243Blood pressure QTL 2433.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)22865266673652666Rat


Additional Information

RGD Curation Notes
Note Type Note Reference
qtl_general number of animals used: 6 male rats 7794751
qtl_general software package used: WinQTL Cartographer Version 2.5 7794751
qtl_general measurement method: at 10 weeks of age, bipolar electrode was implanted into the basolateral amygdala; after 2 weeks 60 Hz monophasic pulse was induced, EEG was used to record the severity of seizures 7794751
qtl_general kindling rate was 3.9 for F344/Stm and 10.3 for LEXF10C/Stm 7794751