Variant report

Variant	rs35232329
Chromosome Location	chr3:67672766-67672767
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs11706848	0.89[EUR][1000 genomes]
rs11712921	0.80[EUR][1000 genomes]
rs11717561	0.80[EUR][1000 genomes]
rs11919414	0.87[EUR][1000 genomes]
rs1463231	0.88[EUR][1000 genomes]
rs1463233	0.89[EUR][1000 genomes]
rs17809202	0.88[EUR][1000 genomes]
rs1831324	0.85[EUR][1000 genomes]
rs1868674	0.89[EUR][1000 genomes]
rs1868675	0.89[EUR][1000 genomes]
rs2084603	0.89[EUR][1000 genomes]
rs2122477	0.89[EUR][1000 genomes]
rs2122479	0.89[EUR][1000 genomes]
rs2167179	0.87[EUR][1000 genomes]
rs2242019	0.89[EUR][1000 genomes]
rs2242020	0.89[EUR][1000 genomes]
rs2242021	0.89[EUR][1000 genomes]
rs2242022	0.89[EUR][1000 genomes]
rs2290172	0.89[EUR][1000 genomes]
rs2290173	0.89[EUR][1000 genomes]
rs2290174	0.89[EUR][1000 genomes]
rs2290175	0.89[EUR][1000 genomes]
rs2363082	0.89[EUR][1000 genomes]
rs2363083	0.88[EUR][1000 genomes]
rs2363084	0.88[EUR][1000 genomes]
rs2363085	0.88[EUR][1000 genomes]
rs2363086	0.88[EUR][1000 genomes]
rs2363087	0.86[EUR][1000 genomes]
rs2363089	0.85[EUR][1000 genomes]
rs2772465	0.84[EUR][1000 genomes]
rs2772468	0.83[EUR][1000 genomes]
rs2885693	0.87[EUR][1000 genomes]
rs4286445	0.88[EUR][1000 genomes]
rs4355299	0.89[EUR][1000 genomes]
rs4588377	0.85[EUR][1000 genomes]
rs6548659	0.87[EUR][1000 genomes]
rs6548660	0.87[EUR][1000 genomes]
rs6767968	0.89[EUR][1000 genomes]
rs6768909	0.86[EUR][1000 genomes]
rs6772251	0.88[EUR][1000 genomes]
rs6772356	0.88[EUR][1000 genomes]
rs6772439	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6778484	0.87[EUR][1000 genomes]
rs6784719	0.88[EUR][1000 genomes]
rs6787584	0.88[EUR][1000 genomes]
rs6789513	0.89[EUR][1000 genomes]
rs6790570	0.89[EUR][1000 genomes]
rs6791198	0.89[EUR][1000 genomes]
rs6792270	0.89[EUR][1000 genomes]
rs6794091	0.85[EUR][1000 genomes]
rs6794625	0.86[EUR][1000 genomes]
rs6796037	0.87[EUR][1000 genomes]
rs6796133	0.88[EUR][1000 genomes]
rs6797121	0.86[EUR][1000 genomes]
rs6797199	0.89[EUR][1000 genomes]
rs6799003	0.89[EUR][1000 genomes]
rs6808106	0.81[EUR][1000 genomes]
rs7627391	0.87[EUR][1000 genomes]
rs7629617	0.88[EUR][1000 genomes]
rs7629728	0.89[EUR][1000 genomes]
rs7630015	0.89[EUR][1000 genomes]
rs7637347	0.88[EUR][1000 genomes]
rs7640362	0.86[EUR][1000 genomes]
rs7642995	0.89[EUR][1000 genomes]
rs7644842	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7648409	0.89[EUR][1000 genomes]
rs7651495	0.89[EUR][1000 genomes]
rs7653350	0.82[EUR][1000 genomes]
rs9309843	0.89[EUR][1000 genomes]
rs9309844	0.88[EUR][1000 genomes]
rs9309845	0.89[EUR][1000 genomes]
rs935735	0.89[EUR][1000 genomes]
rs9810550	0.89[EUR][1000 genomes]
rs9811518	0.89[EUR][1000 genomes]
rs9811648	0.89[EUR][1000 genomes]
rs9813992	0.89[EUR][1000 genomes]
rs9814167	0.87[EUR][1000 genomes]
rs9818900	0.89[EUR][1000 genomes]
rs9828970	0.89[EUR][1000 genomes]
rs9831840	0.89[EUR][1000 genomes]
rs9832061	0.89[EUR][1000 genomes]
rs9833802	0.89[EUR][1000 genomes]
rs9835259	0.89[EUR][1000 genomes]
rs9835458	0.89[EUR][1000 genomes]
rs9836781	0.89[EUR][1000 genomes]
rs9844454	0.88[EUR][1000 genomes]
rs9854214	0.89[EUR][1000 genomes]
rs9865853	0.88[EUR][1000 genomes]
rs9869349	0.87[EUR][1000 genomes]
rs9873616	0.88[EUR][1000 genomes]
rs9875474	0.89[EUR][1000 genomes]
rs9877255	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470638	chr3:67367341-67814738	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv460700	chr3:67393629-67712970	Genic enhancers Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv590560	chr3:67393629-67712970	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv590561	chr3:67548852-67690626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv3359258	chr3:67589615-67828274	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv876922	chr3:67635506-67755257	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv428739	chr3:67656829-67730379	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35232329	SUCLG2	Cis_1M	lymphoblastoid	RTeQTL
rs35232329	RP11-81N13.1	cis	Thyroid	GTEx

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:67601800-67673000	Weak transcription	Fetal Heart	heart
2	chr3:67612400-67697200	Weak transcription	Hela-S3	cervix
3	chr3:67629200-67675000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:67631400-67700200	Weak transcription	K562	blood
5	chr3:67640200-67678000	Weak transcription	Small Intestine	intestine
6	chr3:67653800-67679600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr3:67659600-67674200	Weak transcription	Right Ventricle	heart
8	chr3:67659600-67680800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr3:67659800-67680000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:67659800-67681000	Weak transcription	Spleen	Spleen
11	chr3:67659800-67684400	Weak transcription	Esophagus	oesophagus
12	chr3:67659800-67685600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr3:67659800-67690600	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:67659800-67697400	Weak transcription	Colonic Mucosa	Colon
15	chr3:67660000-67673200	Weak transcription	Fetal Muscle Trunk	muscle
16	chr3:67660000-67680200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:67660000-67685600	Weak transcription	HSMMtube	muscle
18	chr3:67660000-67686000	Weak transcription	Gastric	stomach
19	chr3:67660000-67697200	Weak transcription	Lung	lung
20	chr3:67660000-67697400	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr3:67660200-67673200	Weak transcription	Fetal Thymus	thymus
22	chr3:67660200-67678200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr3:67660200-67680000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr3:67660400-67677800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:67660400-67680200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr3:67660600-67691600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr3:67661200-67685800	Weak transcription	Pancreas	Pancrea
28	chr3:67661200-67704000	Weak transcription	Fetal Kidney	kidney
29	chr3:67661400-67685200	Weak transcription	NHLF	lung
30	chr3:67661400-67699400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr3:67661400-67700000	Weak transcription	Ovary	ovary
32	chr3:67661400-67701000	Weak transcription	Fetal Lung	lung
33	chr3:67661400-67704000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:67661600-67684600	Weak transcription	Osteobl	bone
35	chr3:67661600-67685200	Weak transcription	NHEK	skin
36	chr3:67661600-67703600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr3:67662600-67693000	Weak transcription	HepG2	liver
38	chr3:67663800-67680800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr3:67665000-67692800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr3:67665200-67692000	Weak transcription	Colon Smooth Muscle	Colon
41	chr3:67665400-67672800	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr3:67665400-67679600	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr3:67665600-67673600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr3:67665600-67679400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr3:67666400-67677000	Strong transcription	Primary B cells from cord blood	blood
46	chr3:67666600-67674000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr3:67667000-67673600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr3:67667600-67675400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr3:67668000-67675800	Weak transcription	Placenta	Placenta
50	chr3:67668200-67684600	Weak transcription	NHDF-Ad	bronchial

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