Variant report

Variant	rs9476842
Chromosome Location	chr6:15546779-15546780
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15544544..15546827-chr6:15547014..15548518,2	K562	blood:

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs1018381	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1018382	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1040410	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10949305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752196	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11752598	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11753919	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11755055	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11757499	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11759609	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13437303	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16876671	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1997679	0.83[ASN][1000 genomes]
rs2205852	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619516	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619519	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619526	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619529	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619530	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619533	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619534	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2619535	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619540	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619541	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619544	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619546	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619548	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619552	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743548	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743549	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743550	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743551	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2743552	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2743553	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2743853	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743854	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743858	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743859	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743860	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743861	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743864	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743865	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743866	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743867	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743869	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743870	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743871	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743872	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6459408	0.83[ASN][1000 genomes]
rs6903159	0.83[ASN][1000 genomes]
rs734129	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7752070	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7770921	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs875463	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9296976	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9296977	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9296978	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296979	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9296980	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9296981	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296984	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9296985	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296987	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296988	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464793	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9464794	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464795	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464797	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9464801	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464802	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464803	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464805	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464807	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476835	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476836	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476837	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476838	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476839	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476840	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9476841	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476844	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476845	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476846	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476849	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476854	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476858	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476859	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476860	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476863	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476865	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476866	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476867	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476868	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476869	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476883	1.00[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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv428473	chr6:15522653-15595739	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15524400-15549400	Weak transcription	Hela-S3	cervix
2	chr6:15524800-15549800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr6:15525000-15553400	Weak transcription	Ovary	ovary
4	chr6:15528400-15547400	Weak transcription	Fetal Kidney	kidney
5	chr6:15528600-15546800	Weak transcription	Fetal Lung	lung
6	chr6:15529400-15549800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:15532600-15549800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr6:15533600-15551000	Weak transcription	Fetal Muscle Trunk	muscle
9	chr6:15534000-15551600	Weak transcription	Aorta	Aorta
10	chr6:15534400-15551000	Weak transcription	K562	blood
11	chr6:15534400-15609800	Weak transcription	Thymus	Thymus
12	chr6:15537000-15549800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:15537000-15550000	Weak transcription	Psoas Muscle	Psoas
14	chr6:15537000-15551000	Weak transcription	Left Ventricle	heart
15	chr6:15537000-15551600	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:15537000-15551800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr6:15537000-15554400	Weak transcription	Fetal Intestine Large	intestine
18	chr6:15539800-15554000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr6:15540000-15550800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:15540000-15551800	Weak transcription	Gastric	stomach
21	chr6:15540200-15546800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr6:15540200-15551000	Weak transcription	Pancreas	Pancrea
23	chr6:15541600-15547000	Weak transcription	Brain Anterior Caudate	brain
24	chr6:15544200-15551400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:15544800-15551600	Weak transcription	Primary T cells from cord blood	blood
26	chr6:15545000-15550800	Weak transcription	Primary B cells from cord blood	blood
27	chr6:15545000-15550800	Weak transcription	Primary hematopoietic stem cells	blood
28	chr6:15545000-15554200	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr6:15545200-15549600	Weak transcription	Primary B cells from peripheral blood	blood
30	chr6:15545200-15550800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr6:15545400-15551400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr6:15546000-15546800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr6:15546000-15547000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:15546000-15547000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr6:15546000-15547800	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr6:15546000-15548800	Enhancers	Fetal Stomach	stomach
37	chr6:15546200-15549800	Weak transcription	Right Ventricle	heart
38	chr6:15546200-15551000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:15546400-15546800	Weak transcription	HUVEC	blood vessel
40	chr6:15546400-15551000	Weak transcription	Right Atrium	heart
41	chr6:15546600-15548200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr6:15546600-15551600	Weak transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links