Variant report

Variant	rs35943069
Chromosome Location	chr3:46391648-46391649
allele	G/T
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	MEF2A	chr3:46391124-46391677	GM12878	blood:	n/a	n/a
2	IKZF1	chr3:46391116-46391952	GM12878	blood:	n/a	n/a
3	EBF1	chr3:46391487-46391807	GM12878	blood:	n/a	n/a
4	RUNX3	chr3:46390986-46391983	GM12878	blood:	n/a	chr3:46391417-46391426 chr3:46391408-46391425 chr3:46391417-46391426
5	WRNIP1	chr3:46391532-46391689	GM12878	blood:	n/a	n/a
6	RUNX3	chr3:46391088-46391936	GM12878	blood:	n/a	chr3:46391417-46391426 chr3:46391408-46391425 chr3:46391417-46391426
7	NFIC	chr3:46391197-46391796	GM12878	blood:	n/a	n/a
8	MTA3	chr3:46390901-46391854	GM12878	blood:	n/a	n/a
9	NFIC	chr3:46391134-46391749	GM12878	blood:	n/a	n/a
10	MAX	chr3:46391189-46392001	NB4	blood:	n/a	n/a
11	EBF1	chr3:46391367-46391810	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46388161..46392582-chr3:46393253..46399062,5	K562	blood:
2	chr3:46377692..46380545-chr3:46391345..46393642,2	MCF-7	breast:

Variant related genes	Relation type
CCR2	TF binding region
ENSG00000121807	Chromatin interaction

Extended variants
information (count: 126 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs11574430	0.90[ASN][1000 genomes]
rs11574436	0.90[ASN][1000 genomes]
rs11574442	1.00[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11575062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11919884	0.80[EUR][1000 genomes]
rs13065351	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13068145	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13068271	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13071469	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13073976	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs13077302	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13078564	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13080757	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs13093063	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13100243	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17141079	1.00[ASN][1000 genomes]
rs17141101	0.90[ASN][1000 genomes]
rs17217831	0.85[EUR][1000 genomes]
rs17283712	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs17284138	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17284187	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17285143	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs17715106	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17765882	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17782551	1.00[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17782618	0.95[ASN][1000 genomes]
rs17782636	0.95[ASN][1000 genomes]
rs1894387	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1894388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2157053	1.00[AFR][1000 genomes]
rs2157055	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2373245	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2373250	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2373251	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2856762	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28677778	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3091310	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs3092957	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3092958	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3092959	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3181038	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3204850	1.00[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs34024447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34041956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34073838	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34079287	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs34106161	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34158148	1.00[ASN][1000 genomes]
rs34180919	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34190223	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34200951	0.95[ASN][1000 genomes]
rs34203322	0.87[ASN][1000 genomes]
rs34245951	0.85[ASN][1000 genomes]
rs34265215	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs34351442	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34363105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34406035	0.81[EUR][1000 genomes]
rs34448949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34455547	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34473395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34578126	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34671664	0.85[ASN][1000 genomes]
rs34709208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34883716	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34953706	1.00[ASN][1000 genomes]
rs34988015	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34997818	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs35117954	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35118578	0.86[ASN][1000 genomes]
rs35148665	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35203745	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35218998	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35260614	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35367413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35373513	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35386789	0.86[ASN][1000 genomes]
rs35413141	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35438577	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35479331	1.00[ASN][1000 genomes]
rs35511592	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35513549	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35516519	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35568430	1.00[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs35577626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35601704	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35646896	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35821444	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35878193	0.95[ASN][1000 genomes]
rs35883833	0.85[ASN][1000 genomes]
rs36020695	0.85[ASN][1000 genomes]
rs36030692	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs36048333	0.81[EUR][1000 genomes]
rs36052732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36078103	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3749461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3918354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3918362	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3918365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3918368	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4473594	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4987053	0.83[EUR][1000 genomes]
rs6777875	1.00[ASN][1000 genomes]
rs6793370	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6806951	0.95[ASN][1000 genomes]
rs71327047	0.88[EUR][1000 genomes]
rs71327048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71327052	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327053	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327055	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327056	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71327059	1.00[ASN][1000 genomes]
rs71327061	1.00[ASN][1000 genomes]
rs71327062	0.95[ASN][1000 genomes]
rs71327063	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs71615445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71622511	0.83[EUR][1000 genomes]
rs7649905	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9714000	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9810242	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9872023	0.88[EUR][1000 genomes]
rs9882616	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46389600-46392400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
2	chr3:46390000-46392800	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr3:46390200-46395000	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:46390200-46395200	Enhancers	Primary T cells fromperipheralblood	blood
5	chr3:46390200-46395200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:46390200-46396400	Enhancers	Primary hematopoietic stem cells	blood
7	chr3:46390200-46397800	Enhancers	Fetal Thymus	thymus
8	chr3:46390400-46391800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr3:46390400-46391800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:46390400-46391800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr3:46390400-46392000	Flanking Active TSS	GM12878-XiMat	blood
12	chr3:46390400-46392400	Enhancers	Thymus	Thymus
13	chr3:46390400-46392400	Flanking Active TSS	Dnd41	blood
14	chr3:46390400-46392400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr3:46390600-46391800	Flanking Active TSS	Primary T cells from cord blood	blood
16	chr3:46390800-46391800	Weak transcription	Placenta	Placenta
17	chr3:46390800-46391800	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr3:46390800-46392000	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr3:46390800-46393000	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:46390800-46396800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr3:46391000-46391800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:46391000-46392400	Enhancers	Duodenum Mucosa	Duodenum
23	chr3:46391200-46392000	Flanking Active TSS	Primary B cells from cord blood	blood
24	chr3:46391200-46392000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
25	chr3:46391200-46392000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
26	chr3:46391200-46392200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
27	chr3:46391200-46395200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
28	chr3:46391400-46391800	Flanking Active TSS	Primary B cells from peripheral blood	blood
29	chr3:46391400-46392000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
30	chr3:46391400-46392000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
31	chr3:46391400-46392000	Active TSS	Rectal Mucosa Donor 29	rectum
32	chr3:46391600-46392400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
33	chr3:46391600-46392400	Enhancers	Spleen	Spleen
34	chr3:46391600-46395200	Enhancers	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links