Variant report

Variant	rs3025836
Chromosome Location	chr4:3174971-3174972
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:3173185..3175409-chr4:3176697..3178512,2	MCF-7	breast:
2	chr4:3174198..3176315-chr4:3186979..3189663,2	K562	blood:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10000252	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10002065	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10006977	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10009229	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10009935	1.00[CEU][hapmap]
rs10010375	1.00[CEU][hapmap]
rs10011127	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10011241	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs10011412	1.00[CEU][hapmap]
rs10014333	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10016755	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs10030079	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10034313	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10222986	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13111546	1.00[AFR][1000 genomes]
rs1419036	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs16843857	0.93[EUR][1000 genomes]
rs16843866	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs16843869	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2471343	1.00[CEU][hapmap]
rs2515931	1.00[CEU][hapmap]
rs2515934	1.00[CEU][hapmap]
rs28387056	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28393280	0.87[EUR][1000 genomes]
rs28580164	0.93[EUR][1000 genomes]
rs28583552	0.90[EUR][1000 genomes]
rs28634516	0.93[EUR][1000 genomes]
rs28652828	0.84[EUR][1000 genomes]
rs28660254	0.93[EUR][1000 genomes]
rs28670335	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28696693	0.81[EUR][1000 genomes]
rs28707127	1.00[AFR][1000 genomes]
rs28718346	0.80[EUR][1000 genomes]
rs28755900	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3025799	1.00[AFR][1000 genomes]
rs363138	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4346595	0.87[EUR][1000 genomes]
rs6830019	0.87[EUR][1000 genomes]
rs6835897	0.87[EUR][1000 genomes]
rs7436457	0.87[EUR][1000 genomes]
rs7664480	0.87[EUR][1000 genomes]
rs7693317	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs9291159	1.00[CEU][hapmap]
rs9991144	1.00[CEU][hapmap];1.00[AFR][1000 genomes]
rs9994689	1.00[EUR][1000 genomes]
rs9995782	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9996075	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv461163	chr4:2906285-3234980	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv593437	chr4:2906285-3234980	Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
5	nsv461164	chr4:3149016-3215835	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv593439	chr4:3149016-3215835	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3114600-3292400	Weak transcription	Right Atrium	heart
2	chr4:3145800-3239200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:3162400-3175000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:3162600-3182200	Weak transcription	Small Intestine	intestine
5	chr4:3163000-3182000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr4:3166200-3177400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr4:3167800-3203400	Strong transcription	Primary B cells from peripheral blood	blood
8	chr4:3168000-3180800	Strong transcription	Fetal Stomach	stomach
9	chr4:3168000-3182600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr4:3168000-3191800	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr4:3168000-3192600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr4:3168000-3197600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr4:3168000-3202800	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr4:3168000-3203000	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr4:3170000-3208800	Weak transcription	Stomach Mucosa	stomach
16	chr4:3170200-3181200	Weak transcription	K562	blood
17	chr4:3170200-3185000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr4:3170600-3182200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:3171200-3186600	Strong transcription	GM12878-XiMat	blood
20	chr4:3171200-3197600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr4:3171400-3178000	Strong transcription	Fetal Muscle Trunk	muscle
22	chr4:3171400-3187200	Strong transcription	Primary B cells from cord blood	blood
23	chr4:3171400-3192800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr4:3171600-3178200	Strong transcription	Fetal Muscle Leg	muscle
25	chr4:3171600-3192800	Strong transcription	Primary T cells from cord blood	blood
26	chr4:3171600-3193600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr4:3171800-3180800	Strong transcription	Duodenum Smooth Muscle	Duodenum
28	chr4:3172000-3180000	Strong transcription	HepG2	liver
29	chr4:3172000-3192000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr4:3172000-3202800	Strong transcription	Duodenum Mucosa	Duodenum
31	chr4:3172200-3178000	Strong transcription	Fetal Intestine Small	intestine
32	chr4:3172200-3180400	Strong transcription	Liver	Liver
33	chr4:3172200-3193000	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr4:3172200-3195400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr4:3172400-3199800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr4:3172400-3238800	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr4:3172600-3192400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr4:3172800-3202800	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr4:3173000-3181200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr4:3173000-3192600	Strong transcription	Primary T helper cells PMA-I stimulated	--
41	chr4:3173000-3193000	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr4:3173200-3182600	Strong transcription	Dnd41	blood
43	chr4:3173400-3175600	Strong transcription	Primary hematopoietic stem cells	blood
44	chr4:3173400-3177000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr4:3173400-3178200	Strong transcription	Fetal Intestine Large	intestine
46	chr4:3173400-3180800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr4:3173400-3188800	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr4:3173600-3175200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr4:3173600-3175800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr4:3173600-3175800	Strong transcription	Skeletal Muscle Male	skeletal muscle

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