Variant report

Variant	rs1040410
Chromosome Location	chr6:15547476-15547477
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: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs1018381	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1018382	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10949305	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11752196	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11752598	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11753919	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11755055	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11757499	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11759609	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13437303	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16876671	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1997679	0.83[ASN][1000 genomes]
rs2205852	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619516	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619519	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619521	1.00[JPT][hapmap]
rs2619522	1.00[JPT][hapmap]
rs2619526	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619528	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2619529	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619530	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619533	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2619534	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2619535	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619540	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619541	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619544	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619545	1.00[JPT][hapmap]
rs2619546	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619548	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619552	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743548	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743549	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743550	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743551	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2743552	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2743553	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2743853	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743854	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743857	1.00[JPT][hapmap]
rs2743858	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743859	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743860	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743861	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743864	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743865	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743866	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743867	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743869	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743870	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743871	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2743872	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3778651	0.82[CEU][hapmap]
rs6459408	0.83[ASN][1000 genomes]
rs6903159	0.83[ASN][1000 genomes]
rs734129	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs760761	1.00[JPT][hapmap]
rs7752070	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7756793	0.88[CEU][hapmap]
rs7770921	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs875463	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9296975	0.82[CEU][hapmap]
rs9296976	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9296977	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9296978	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9296979	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9296980	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9296981	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296984	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9296985	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296987	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9296988	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464793	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9464794	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464795	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464797	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9464801	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464802	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464803	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464805	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9464807	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476835	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9476836	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476837	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476838	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476839	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476840	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9476841	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9476842	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476844	1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476845	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476846	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476849	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9476854	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476858	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476859	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476860	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476863	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476865	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476866	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476867	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476868	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476869	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9476883	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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:53 , 50 per page) page: 1 2

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	chr6:15529400-15549800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr6:15532600-15549800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:15533600-15551000	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:15534000-15551600	Weak transcription	Aorta	Aorta
8	chr6:15534400-15551000	Weak transcription	K562	blood
9	chr6:15534400-15609800	Weak transcription	Thymus	Thymus
10	chr6:15537000-15549800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:15537000-15550000	Weak transcription	Psoas Muscle	Psoas
12	chr6:15537000-15551000	Weak transcription	Left Ventricle	heart
13	chr6:15537000-15551600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:15537000-15551800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:15537000-15554400	Weak transcription	Fetal Intestine Large	intestine
16	chr6:15539800-15554000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:15540000-15550800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:15540000-15551800	Weak transcription	Gastric	stomach
19	chr6:15540200-15551000	Weak transcription	Pancreas	Pancrea
20	chr6:15544200-15551400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr6:15544800-15551600	Weak transcription	Primary T cells from cord blood	blood
22	chr6:15545000-15550800	Weak transcription	Primary B cells from cord blood	blood
23	chr6:15545000-15550800	Weak transcription	Primary hematopoietic stem cells	blood
24	chr6:15545000-15554200	Weak transcription	Monocytes-CD14+_RO01746	blood
25	chr6:15545200-15549600	Weak transcription	Primary B cells from peripheral blood	blood
26	chr6:15545200-15550800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr6:15545400-15551400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr6:15546000-15547800	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr6:15546000-15548800	Enhancers	Fetal Stomach	stomach
30	chr6:15546200-15549800	Weak transcription	Right Ventricle	heart
31	chr6:15546200-15551000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:15546400-15551000	Weak transcription	Right Atrium	heart
33	chr6:15546600-15548200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:15546600-15551600	Weak transcription	Lung	lung
35	chr6:15546800-15547800	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr6:15546800-15547800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr6:15546800-15547800	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr6:15546800-15548200	Enhancers	Pancreatic Islets	Pancreatic Islet
39	chr6:15546800-15548200	Enhancers	Fetal Lung	lung
40	chr6:15546800-15549000	Enhancers	HUVEC	blood vessel
41	chr6:15547000-15548000	Enhancers	iPS-20b Cell Line	embryonic stem cell
42	chr6:15547000-15548000	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr6:15547000-15548000	Enhancers	Brain Anterior Caudate	brain
44	chr6:15547000-15549800	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr6:15547000-15549800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr6:15547000-15551000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:15547200-15547800	Enhancers	Colon Smooth Muscle	Colon
48	chr6:15547400-15548000	Enhancers	Duodenum Smooth Muscle	Duodenum
49	chr6:15547400-15548000	Enhancers	Fetal Muscle Leg	muscle
50	chr6:15547400-15548000	Enhancers	Rectal Smooth Muscle	rectum

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