Variant report

Variant	rs7661462
Chromosome Location	chr4:6968190-6968191
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6953603..6955195-chr4:6967201..6969667,2	K562	blood:
2	chr4:6964966..6966973-chr4:6967560..6969658,4	MCF-7	breast:
3	chr4:6962320..6964054-chr4:6967764..6970067,3	K562	blood:
4	chr4:6968058..6971311-chr4:6972075..6975359,5	K562	blood:
5	chr4:6966970..6969558-chr4:6972075..6974539,2	K562	blood:

Variant related genes	Relation type
ENSG00000265953	Chromatin interaction

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10012590	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs10025310	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs1048009	0.93[YRI][hapmap]
rs10516181	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10937772	0.88[ASN][1000 genomes]
rs10937774	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10937776	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11732898	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11938701	0.86[ASN][1000 genomes]
rs11944897	0.86[ASN][1000 genomes]
rs12502513	1.00[CHB][hapmap]
rs12503027	0.86[ASN][1000 genomes]
rs13107989	0.86[ASN][1000 genomes]
rs13122119	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs13135912	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13148395	0.86[ASN][1000 genomes]
rs13149411	0.80[ASN][1000 genomes]
rs2301817	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs2301818	0.80[ASN][1000 genomes]
rs2301819	0.80[ASN][1000 genomes]
rs2359194	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3188939	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs34219101	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34221933	0.86[ASN][1000 genomes]
rs34335938	0.80[ASN][1000 genomes]
rs34463709	0.80[ASN][1000 genomes]
rs34481892	0.80[ASN][1000 genomes]
rs34959511	0.80[ASN][1000 genomes]
rs35170004	0.80[ASN][1000 genomes]
rs3857171	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3892490	0.90[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3894945	0.86[ASN][1000 genomes]
rs4234791	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs4234793	0.86[ASN][1000 genomes]
rs4296677	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4428285	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4458452	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4544710	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs4645214	0.94[CEU][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4689059	0.95[CEU][hapmap];0.83[YRI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4689060	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4689560	1.00[CHB][hapmap]
rs4689563	0.80[ASN][1000 genomes]
rs4689564	0.80[ASN][1000 genomes]
rs4689565	0.80[ASN][1000 genomes]
rs4689568	0.81[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4689573	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4689575	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs4689579	0.80[ASN][1000 genomes]
rs55822670	1.00[ASN][1000 genomes]
rs62289166	0.86[ASN][1000 genomes]
rs66530709	0.80[ASN][1000 genomes]
rs66640699	0.80[ASN][1000 genomes]
rs66931928	0.80[ASN][1000 genomes]
rs66992702	0.80[ASN][1000 genomes]
rs6811496	0.86[ASN][1000 genomes]
rs6816882	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6818744	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs6831129	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6834102	0.86[ASN][1000 genomes]
rs6840780	0.86[ASN][1000 genomes]
rs6854776	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs6855531	0.87[AFR][1000 genomes]
rs7655563	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs7655773	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs7658198	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[YRI][hapmap];0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7661952	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs7673901	0.86[ASN][1000 genomes]
rs7675524	1.00[CHB][hapmap]
rs7685667	0.86[ASN][1000 genomes]
rs7693321	0.94[ASN][1000 genomes]
rs8180337	0.95[CEU][hapmap];0.83[YRI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6928000-6969600	Weak transcription	Aorta	Aorta
2	chr4:6945000-6970200	Weak transcription	Hela-S3	cervix
3	chr4:6946600-6969000	Weak transcription	Dnd41	blood
4	chr4:6955800-6976000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr4:6956000-6976000	Weak transcription	Colon Smooth Muscle	Colon
6	chr4:6956400-6969200	Weak transcription	K562	blood
7	chr4:6957600-6970400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr4:6957600-6973800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr4:6957600-6976000	Weak transcription	Fetal Lung	lung
10	chr4:6957800-6976000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr4:6958400-6975800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr4:6958800-6969400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr4:6959200-6968800	Weak transcription	Primary T cells from cord blood	blood
14	chr4:6962200-6969600	Weak transcription	Fetal Brain Female	brain
15	chr4:6962400-6968800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr4:6962600-6968200	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr4:6962600-6968400	Enhancers	Liver	Liver
18	chr4:6963000-6968600	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr4:6963600-6968200	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr4:6964200-6969000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr4:6964200-6969600	Weak transcription	Esophagus	oesophagus
22	chr4:6964200-6976000	Weak transcription	Brain Germinal Matrix	brain
23	chr4:6964600-6968400	Enhancers	Brain Hippocampus Middle	brain
24	chr4:6964800-6969400	Weak transcription	Fetal Stomach	stomach
25	chr4:6964800-6969600	Weak transcription	Stomach Smooth Muscle	stomach
26	chr4:6964800-6973400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr4:6965000-6968800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr4:6965000-6969000	Weak transcription	Fetal Thymus	thymus
29	chr4:6965000-6976000	Weak transcription	A549	lung
30	chr4:6965200-6968400	Enhancers	Brain Substantia Nigra	brain
31	chr4:6965200-6969200	Weak transcription	Colonic Mucosa	Colon
32	chr4:6965200-6969600	Weak transcription	Right Atrium	heart
33	chr4:6965200-6970400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr4:6965200-6971600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr4:6965200-6973400	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr4:6965200-6976000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr4:6965200-6976000	Weak transcription	Stomach Mucosa	stomach
38	chr4:6965200-6976200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr4:6965400-6969200	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr4:6965400-6969200	Weak transcription	Adipose Nuclei	Adipose
41	chr4:6965400-6969200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr4:6965400-6969200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr4:6965400-6969400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr4:6965400-6969400	Weak transcription	Brain Anterior Caudate	brain
45	chr4:6965400-6969600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr4:6965400-6969600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr4:6965400-6969600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr4:6965400-6969600	Weak transcription	Left Ventricle	heart
49	chr4:6965400-6969600	Weak transcription	Lung	lung
50	chr4:6965400-6969600	Weak transcription	Right Ventricle	heart

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