Variant report

Variant	rs12656177
Chromosome Location	chr5:74354422-74354423
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10045375	0.80[ASN][1000 genomes]
rs10214239	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10462354	0.80[ASN][1000 genomes]
rs10462512	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10462514	0.81[EUR][1000 genomes]
rs10942729	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12523187	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12653162	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13359143	0.80[EUR][1000 genomes]
rs13360638	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1363577	0.80[ASN][1000 genomes]
rs1422696	0.80[ASN][1000 genomes]
rs1422697	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1422698	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1422699	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1477932	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1477933	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1477935	0.80[ASN][1000 genomes]
rs1477936	0.80[ASN][1000 genomes]
rs1600074	0.80[EUR][1000 genomes]
rs1833793	0.80[ASN][1000 genomes]
rs2035192	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2059159	0.80[ASN][1000 genomes]
rs2335136	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28376290	0.80[ASN][1000 genomes]
rs3935470	0.83[EUR][1000 genomes]
rs4128618	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4235683	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4324655	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4340901	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4345300	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4361493	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4389672	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4447960	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4447963	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4621537	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4621540	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4703646	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4703657	0.80[ASN][1000 genomes]
rs4704184	0.80[ASN][1000 genomes]
rs4704185	0.80[ASN][1000 genomes]
rs4704186	0.80[ASN][1000 genomes]
rs6453111	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6453112	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6453119	0.82[EUR][1000 genomes]
rs6453120	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6453121	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6858969	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6859176	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6860441	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6862740	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6869345	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6872475	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6885071	0.80[ASN][1000 genomes]
rs6888707	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6894048	0.80[ASN][1000 genomes]
rs6896474	0.80[ASN][1000 genomes]
rs6898134	0.80[ASN][1000 genomes]
rs7356697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700965	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7701262	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7704104	0.80[ASN][1000 genomes]
rs7707246	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7709707	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7711762	0.80[ASN][1000 genomes]
rs7717337	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7719663	0.81[EUR][1000 genomes]
rs7720620	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7735937	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9293642	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9293643	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9654429	0.80[ASN][1000 genomes]
rs965735	0.80[ASN][1000 genomes]
rs9763362	0.82[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	nsv1018865	chr5:74246293-74494552	Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv1835096	chr5:74336883-74356857	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:74350200-74357200	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr5:74350400-74355000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr5:74350400-74355800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr5:74350400-74360000	Enhancers	Fetal Thymus	thymus
5	chr5:74350600-74356400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:74350600-74357400	Enhancers	Primary T cells fromperipheralblood	blood
7	chr5:74350800-74357200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr5:74350800-74357400	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr5:74350800-74359600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr5:74350800-74367600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr5:74351000-74355000	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr5:74351000-74357000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr5:74351200-74354800	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr5:74351600-74355600	Weak transcription	Pancreas	Pancrea
15	chr5:74352000-74356000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr5:74352600-74357000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr5:74352600-74357200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr5:74352800-74355000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr5:74353800-74354800	Enhancers	Primary T cells from cord blood	blood
20	chr5:74353800-74355000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr5:74353800-74355200	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr5:74353800-74355200	Enhancers	Thymus	Thymus
23	chr5:74354000-74355200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr5:74354000-74355400	Weak transcription	Primary hematopoietic stem cells	blood
25	chr5:74354400-74355200	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr5:74354400-74355200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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