Variant report

Variant	rs1871758
Chromosome Location	chr4:1161729-1161730
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:1161114..1165211-chr4:1166165..1170804,4	MCF-7	breast:
2	chr4:1159229..1162099-chr4:1242725..1245069,2	K562	blood:
3	chr4:1159882..1162594-chr4:1225934..1228487,2	MCF-7	breast:
4	chr4:1158166..1163360-chr4:1238498..1245354,13	MCF-7	breast:
5	chr4:1160924..1165328-chr4:1340425..1343058,5	MCF-7	breast:
6	chr4:1161675..1163555-chr4:1169840..1172430,2	MCF-7	breast:
7	chr4:1005928..1008320-chr4:1161466..1163793,2	MCF-7	breast:
8	chr4:1161599..1163141-chr4:1169473..1171016,2	K562	blood:
9	chr4:1146501..1148469-chr4:1159921..1162668,2	MCF-7	breast:
10	chr4:1160471..1164177-chr4:1164804..1166602,3	K562	blood:
11	chr4:1159479..1162008-chr4:1166717..1168665,3	MCF-7	breast:
12	chr4:1159747..1163015-chr4:1240558..1244483,3	K562	blood:
13	chr4:1159320..1162756-chr4:1282339..1286135,5	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C4orf42-6	chr4:1161566-1161962	ENSG00000273179.1

No data

Variant related genes	Relation type
ENSG00000163945	Chromatin interaction
ENSG00000215367	Chromatin interaction
ENSG00000090316	Chromatin interaction
ENSG00000127418	Chromatin interaction
ENSG00000196810	Chromatin interaction
ENSG00000159674	Chromatin interaction
ENSG00000159692	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10013662	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13115935	0.83[AFR][1000 genomes]
rs1383658	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1383659	0.85[YRI][hapmap]
rs1481168	0.94[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2127911	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4246689	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs4336168	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4465987	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4974567	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4974634	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4974635	0.95[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs4974636	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4974641	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6834402	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6836809	0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6836952	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7660109	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7676912	0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7691582	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs922697	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9997694	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
2	nsv530490	chr4:614355-1399150	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Active TSS 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	104 gene(s)	inside rSNPs	diseases
3	nsv536980	chr4:827866-1167377	Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
4	nsv1009619	chr4:901897-1215657	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv1003876	chr4:927509-1191316	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
6	nsv1000381	chr4:927509-1198766	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	esv3339080	chr4:970630-1546223	Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
8	nsv1005990	chr4:1015652-1167619	Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	nsv1012892	chr4:1086871-1176630	Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
10	nsv829835	chr4:1097586-1304239	Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
11	nsv878328	chr4:1141573-1990425	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
12	nsv878329	chr4:1147407-1254930	Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
13	nsv878330	chr4:1147407-1523930	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS 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	71 gene(s)	inside rSNPs	diseases
14	nsv519106	chr4:1158991-1174861	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv593276	chr4:1159680-1227469	Flanking Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
16	nsv461151	chr4:1159680-1236840	Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
17	nsv593277	chr4:1159680-1236840	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
18	nsv878331	chr4:1159680-1254930	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
19	nsv461152	chr4:1159680-1415698	Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
20	nsv593278	chr4:1159680-1415698	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:1160400-1163400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:1160600-1162000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr4:1160800-1161800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
4	chr4:1160800-1161800	Active TSS	H9 Cell Line	embryonic stem cell
5	chr4:1160800-1161800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr4:1160800-1161800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
7	chr4:1160800-1161800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr4:1160800-1161800	Active TSS	Rectal Smooth Muscle	rectum
9	chr4:1160800-1162000	Flanking Active TSS	Primary B cells from cord blood	blood
10	chr4:1160800-1162000	Flanking Active TSS	Liver	Liver
11	chr4:1160800-1162000	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
12	chr4:1161000-1161800	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
13	chr4:1161000-1161800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr4:1161000-1161800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr4:1161000-1161800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
16	chr4:1161000-1161800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr4:1161000-1161800	Active TSS	Primary T cells from cord blood	blood
18	chr4:1161000-1161800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
19	chr4:1161000-1161800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
20	chr4:1161000-1161800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr4:1161000-1161800	Flanking Active TSS	Adipose Nuclei	Adipose
22	chr4:1161000-1161800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
23	chr4:1161000-1161800	Active TSS	Fetal Brain Female	brain
24	chr4:1161000-1161800	Flanking Bivalent TSS/Enh	Placenta	Placenta
25	chr4:1161000-1161800	Flanking Active TSS	Fetal Thymus	thymus
26	chr4:1161000-1161800	Active TSS	Gastric	stomach
27	chr4:1161000-1161800	Active TSS	Right Atrium	heart
28	chr4:1161000-1162000	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr4:1161000-1162000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
30	chr4:1161000-1162000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
31	chr4:1161000-1162000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
32	chr4:1161000-1162000	Flanking Active TSS	Primary hematopoietic stem cells	blood
33	chr4:1161000-1162000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr4:1161000-1162000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr4:1161000-1162000	Flanking Active TSS	Duodenum Mucosa	Duodenum
36	chr4:1161000-1162000	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
37	chr4:1161000-1162000	Active TSS	Pancreatic Islets	Pancreatic Islet
38	chr4:1161000-1162000	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
39	chr4:1161000-1162000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
40	chr4:1161000-1162000	Flanking Active TSS	Right Ventricle	heart
41	chr4:1161000-1162000	Active TSS	Osteobl	bone
42	chr4:1161000-1162200	Active TSS	Brain Anterior Caudate	brain
43	chr4:1161200-1161800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
44	chr4:1161200-1161800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr4:1161200-1161800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
46	chr4:1161200-1161800	Active TSS	Primary T killer naive cells fromperipheralblood	blood
47	chr4:1161200-1161800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
48	chr4:1161200-1161800	Flanking Active TSS	Colonic Mucosa	Colon
49	chr4:1161200-1161800	Active TSS	Lung	lung
50	chr4:1161200-1161800	Flanking Active TSS	Ovary	ovary

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