Variant report

Variant	rs61662306
Chromosome Location	chr6:33746697-33746698
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	REST	chr6:33745927-33746883	H1-neurons	neurons:	n/a	n/a
2	POLR2A	chr6:33746611-33746850	GM12878	blood:	n/a	n/a
3	POLR2A	chr6:33746607-33747017	GM12891	blood:	n/a	n/a
4	POLR2A	chr6:33746695-33747009	K562	blood:	n/a	n/a
5	POLR2A	chr6:33746581-33746813	K562	blood:	n/a	n/a
6	POLR2A	chr6:33746182-33747942	K562	blood:	n/a	n/a
7	POLR2A	chr6:33746635-33746857	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr6:33746522-33746861	K562	blood:	n/a	n/a
9	POLR2A	chr6:33746644-33746844	HepG2	liver:	n/a	n/a
10	POLR2A	chr6:33746184-33746732	H1-neurons	neurons:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:33743776..33747465-chr6:33751783..33755243,5	MCF-7	breast:

Variant related genes	Relation type
LEMD2	TF binding region
ENSG00000161904	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1075379	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11753083	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11754690	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755593	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11757524	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11758463	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12524768	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12524835	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1887340	0.94[EUR][1000 genomes]
rs2281819	0.89[EUR][1000 genomes]
rs2395400	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2894342	0.89[EUR][1000 genomes]
rs3763253	0.89[EUR][1000 genomes]
rs3828783	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4711346	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55775340	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59137082	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61394483	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6910736	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6921487	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6930201	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6933174	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6933568	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6933607	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940353	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72880511	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73412140	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73746509	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs747692	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs751096	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs755495	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7755323	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs943461	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs943462	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs943466	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases
2	nsv462897	chr6:33717770-33778964	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv602839	chr6:33717770-33778964	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv462898	chr6:33723383-33768897	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv602840	chr6:33723383-33768897	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33738600-33753200	Strong transcription	Thymus	Thymus
2	chr6:33739600-33752600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:33739600-33754000	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:33739800-33752400	Strong transcription	Primary T helper cells PMA-I stimulated	--
5	chr6:33739800-33752600	Strong transcription	Primary T helper cells fromperipheralblood	blood
6	chr6:33739800-33753000	Strong transcription	Primary B cells from peripheral blood	blood
7	chr6:33739800-33753000	Strong transcription	Primary T cells from cord blood	blood
8	chr6:33739800-33753000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:33739800-33753600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:33740000-33749000	Strong transcription	Brain Anterior Caudate	brain
11	chr6:33740000-33752400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr6:33740000-33752600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr6:33740000-33752600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr6:33740000-33752800	Strong transcription	Dnd41	blood
15	chr6:33740000-33753000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr6:33740000-33753000	Strong transcription	HepG2	liver
17	chr6:33740000-33753200	Strong transcription	Primary hematopoietic stem cells	blood
18	chr6:33740000-33753600	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr6:33740000-33753600	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr6:33740200-33747800	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:33740200-33748400	Weak transcription	Fetal Heart	heart
22	chr6:33740200-33748600	Weak transcription	Right Atrium	heart
23	chr6:33740200-33748800	Strong transcription	Osteobl	bone
24	chr6:33740200-33749200	Strong transcription	Gastric	stomach
25	chr6:33740200-33749400	Strong transcription	Lung	lung
26	chr6:33740200-33750000	Strong transcription	Pancreas	Pancrea
27	chr6:33740200-33751600	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr6:33740200-33751800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr6:33740200-33752400	Strong transcription	Rectal Smooth Muscle	rectum
30	chr6:33740200-33752600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
31	chr6:33740200-33753000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:33740200-33753400	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr6:33740200-33754000	Strong transcription	Primary B cells from cord blood	blood
34	chr6:33740400-33747200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:33740400-33747800	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr6:33740400-33747800	Strong transcription	Left Ventricle	heart
37	chr6:33740400-33749000	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr6:33740400-33749200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:33740400-33752600	Strong transcription	Colon Smooth Muscle	Colon
40	chr6:33740400-33752800	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr6:33740400-33753200	Strong transcription	Aorta	Aorta
42	chr6:33740400-33753600	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:33740600-33747400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:33740600-33747600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
45	chr6:33740600-33747800	Strong transcription	Right Ventricle	heart
46	chr6:33740600-33748200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:33740600-33748400	Strong transcription	A549	lung
48	chr6:33740600-33749000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:33740600-33749200	Strong transcription	Adipose Nuclei	Adipose
50	chr6:33740600-33753000	Strong transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links