Variant report

Variant	rs7654818
Chromosome Location	chr4:148791341-148791342
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10013038	1.00[EUR][1000 genomes]
rs10022144	1.00[EUR][1000 genomes]
rs1036441	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519918	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11723235	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11725005	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13147854	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17023933	0.86[ASN][1000 genomes]
rs17023942	0.86[ASN][1000 genomes]
rs17023992	1.00[ASN][1000 genomes]
rs2118034	1.00[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2358179	1.00[CHB][hapmap]
rs4240340	1.00[EUR][1000 genomes]
rs4240342	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4527458	1.00[CHB][hapmap]
rs4835102	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4835104	1.00[CHB][hapmap];0.82[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4835105	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4835462	1.00[EUR][1000 genomes]
rs4835465	1.00[CHB][hapmap];0.81[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4835467	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6535563	1.00[CHB][hapmap]
rs6535564	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6535566	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6851336	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6852320	1.00[EUR][1000 genomes]
rs6853610	1.00[CHB][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6856071	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs72955571	1.00[EUR][1000 genomes]
rs7435763	1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7660688	1.00[CHB][hapmap]
rs7661267	1.00[CHB][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7687859	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7700162	1.00[EUR][1000 genomes]
rs893030	1.00[EUR][1000 genomes];1.00[ASN][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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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	20 gene(s)	inside rSNPs	diseases
3	nsv880243	chr4:148735644-148879583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv880244	chr4:148764252-148920089	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1029845	chr4:148766290-148916437	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1030001	chr4:148773479-148916437	Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148763200-148796200	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr4:148766600-148796200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr4:148767600-148796400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr4:148768400-148815600	Weak transcription	Primary T cells from cord blood	blood
5	chr4:148770400-148796200	Weak transcription	Fetal Kidney	kidney
6	chr4:148772000-148806000	Weak transcription	Fetal Thymus	thymus
7	chr4:148777000-148796200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:148777000-148823000	Weak transcription	Small Intestine	intestine
9	chr4:148777400-148796600	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr4:148777800-148796200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:148779800-148793800	Weak transcription	Fetal Lung	lung
12	chr4:148782000-148799400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr4:148783000-148796200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr4:148783000-148796200	Weak transcription	Thymus	Thymus
15	chr4:148783400-148796400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr4:148783400-148796400	Weak transcription	Lung	lung
17	chr4:148783600-148796200	Weak transcription	Esophagus	oesophagus
18	chr4:148783600-148796200	Weak transcription	Placenta	Placenta
19	chr4:148783800-148796200	Weak transcription	Fetal Intestine Large	intestine
20	chr4:148783800-148796200	Weak transcription	Gastric	stomach
21	chr4:148783800-148796200	Weak transcription	Right Ventricle	heart
22	chr4:148784400-148810800	Weak transcription	Fetal Heart	heart
23	chr4:148784600-148796400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr4:148785400-148796200	Weak transcription	GM12878-XiMat	blood
25	chr4:148785600-148796200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr4:148786000-148804000	Weak transcription	Psoas Muscle	Psoas
27	chr4:148786000-148861400	Weak transcription	Pancreas	Pancrea
28	chr4:148786400-148796200	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr4:148787000-148794000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr4:148787400-148795600	Weak transcription	NH-A	brain
31	chr4:148787400-148796200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:148787400-148800400	Weak transcription	NHEK	skin
33	chr4:148787600-148796200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr4:148787600-148796200	Weak transcription	Osteobl	bone
35	chr4:148787600-148801600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr4:148787800-148793600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr4:148788000-148796200	Weak transcription	HUVEC	blood vessel
38	chr4:148788000-148798400	Weak transcription	Brain Substantia Nigra	brain
39	chr4:148788000-148800200	Weak transcription	Brain Hippocampus Middle	brain
40	chr4:148788400-148791600	Strong transcription	Fetal Muscle Leg	muscle
41	chr4:148788400-148796200	Weak transcription	Colon Smooth Muscle	Colon
42	chr4:148788600-148796200	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr4:148788600-148796200	Weak transcription	Rectal Smooth Muscle	rectum
44	chr4:148788600-148796600	Weak transcription	HMEC	breast
45	chr4:148788600-148796800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr4:148788800-148796200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr4:148788800-148796400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr4:148788800-148803200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr4:148789800-148793400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr4:148789800-148805800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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