Variant report

Variant	rs28677778
Chromosome Location	chr3:46322171-46322172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46318130..46320432-chr3:46322132..46324607,2	K562	blood:

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10510750	0.85[EUR][1000 genomes]
rs11575062	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11919884	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13065351	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13068145	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13068271	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071469	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073976	0.88[EUR][1000 genomes]
rs13077302	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078564	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13080757	0.88[EUR][1000 genomes]
rs13093063	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13096808	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13096905	0.86[ASN][1000 genomes]
rs13100243	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141079	0.86[ASN][1000 genomes]
rs17217831	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17283712	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17284138	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17284187	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17715106	0.86[ASN][1000 genomes]
rs17765882	0.86[ASN][1000 genomes]
rs17782551	0.82[ASN][1000 genomes]
rs17782618	0.82[ASN][1000 genomes]
rs17782636	0.82[ASN][1000 genomes]
rs1894387	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1894388	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2856762	0.86[ASN][1000 genomes]
rs3091310	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3092957	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3092958	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3092959	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3181038	0.86[ASN][1000 genomes]
rs34024447	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34041956	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34073838	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34079287	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34106161	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34158148	0.86[ASN][1000 genomes]
rs34180919	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34190223	0.86[ASN][1000 genomes]
rs34200951	0.82[ASN][1000 genomes]
rs34272024	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34351442	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34363105	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34406035	0.88[EUR][1000 genomes]
rs34448949	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34455547	0.86[ASN][1000 genomes]
rs34473395	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34578126	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34709208	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34883716	0.86[ASN][1000 genomes]
rs34953706	0.86[ASN][1000 genomes]
rs34988015	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35035328	0.87[EUR][1000 genomes]
rs35117954	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35148665	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35203745	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35218998	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35260614	0.86[ASN][1000 genomes]
rs35367413	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35373513	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35413141	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35438577	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35479331	0.86[ASN][1000 genomes]
rs35511592	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35513549	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35516519	0.86[ASN][1000 genomes]
rs35577626	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35601704	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35646896	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35821444	0.86[ASN][1000 genomes]
rs35878193	0.82[ASN][1000 genomes]
rs35943069	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs36048333	0.88[EUR][1000 genomes]
rs36052732	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs36078103	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3749461	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3918354	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3918362	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3918365	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3918368	0.90[EUR][1000 genomes]
rs4473594	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4987053	0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6777875	0.86[ASN][1000 genomes]
rs6793370	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6803341	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6806951	0.82[ASN][1000 genomes]
rs71327047	0.98[EUR][1000 genomes]
rs71327048	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71327052	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327053	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327054	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327055	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327056	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327057	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71327059	0.86[ASN][1000 genomes]
rs71327061	0.86[ASN][1000 genomes]
rs71327062	0.82[ASN][1000 genomes]
rs71615445	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71622511	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7649905	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9810242	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9872023	0.98[EUR][1000 genomes]
rs9882616	0.98[EUR][1000 genomes];1.00[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3434479	chr3:46321987-46322359	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46317600-46324600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
2	chr3:46317600-46329200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:46317800-46329200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr3:46318000-46331400	Enhancers	Primary T cells fromperipheralblood	blood
5	chr3:46318800-46327000	Weak transcription	Spleen	Spleen
6	chr3:46319400-46324200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr3:46320400-46322400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr3:46320400-46322600	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr3:46320400-46322600	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr3:46320400-46322600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
11	chr3:46320600-46322600	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr3:46320600-46322600	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr3:46320800-46322600	Enhancers	GM12878-XiMat	blood
14	chr3:46321400-46322200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:46321400-46322200	Enhancers	NHEK	skin
16	chr3:46321400-46327800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:46321600-46322200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:46321600-46322400	Enhancers	Primary T cells from cord blood	blood
19	chr3:46321600-46322400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
20	chr3:46322000-46322200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
21	chr3:46322000-46322400	Enhancers	Duodenum Mucosa	Duodenum
22	chr3:46322000-46324000	Weak transcription	Monocytes-CD14+_RO01746	blood

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