Variant report

Variant	rs10004038
Chromosome Location	chr4:47573660-47573661
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10021442	1.00[CHB][hapmap]
rs11932436	1.00[CHB][hapmap]
rs11934428	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11941639	1.00[CHB][hapmap]
rs11947712	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1316783	1.00[CHB][hapmap]
rs13435606	1.00[CHB][hapmap]
rs16860404	1.00[CHB][hapmap]
rs17462783	1.00[CHB][hapmap]
rs17572227	1.00[CHB][hapmap]
rs17572234	1.00[CHB][hapmap]
rs17572617	1.00[CHB][hapmap]
rs28488258	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28509198	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34208443	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4599383	1.00[CHB][hapmap]
rs4694851	1.00[CHB][hapmap]
rs4695239	1.00[CHB][hapmap]
rs4695243	1.00[CHB][hapmap]
rs6447564	1.00[CHB][hapmap]
rs6835978	1.00[CHB][hapmap]
rs6842769	1.00[CHB][hapmap]
rs73237094	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237095	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237098	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237099	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237100	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237101	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237102	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73238603	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73238604	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73238607	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73238608	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7674353	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829923	chr4:47436139-47678443	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1008515	chr4:47488431-47906835	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Active TSS Flanking 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 miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv948568	chr4:47488431-47907524	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1004939	chr4:47488573-47901460	Bivalent Enhancer Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS 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 miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv537080	chr4:47488573-47901460	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv997471	chr4:47489412-47895223	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv998892	chr4:47493552-47863354	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers 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	9 gene(s)	inside rSNPs	diseases
8	nsv537081	chr4:47493552-47863354	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv1000337	chr4:47493907-47902019	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
10	nsv594118	chr4:47560386-47917730	Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
11	nsv967946	chr4:47569922-47575910	Strong transcription Genic enhancers Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:47512400-47577200	Weak transcription	Small Intestine	intestine
2	chr4:47534600-47580800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr4:47534600-47592000	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr4:47539600-47589000	Weak transcription	Colonic Mucosa	Colon
5	chr4:47544800-47574000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr4:47546400-47589400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr4:47548800-47583800	Weak transcription	Psoas Muscle	Psoas
8	chr4:47549000-47574000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr4:47549400-47574800	Weak transcription	Primary T cells from cord blood	blood
10	chr4:47549400-47576800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr4:47555800-47594800	Weak transcription	Stomach Mucosa	stomach
12	chr4:47556400-47578800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr4:47556400-47588000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr4:47560200-47574600	Weak transcription	Fetal Intestine Small	intestine
15	chr4:47560200-47579400	Weak transcription	Primary T cells fromperipheralblood	blood
16	chr4:47560400-47573800	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr4:47564000-47589600	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr4:47564600-47580800	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr4:47564800-47573800	Weak transcription	Fetal Heart	heart
20	chr4:47567400-47579200	Weak transcription	HUVEC	blood vessel
21	chr4:47567600-47578000	Strong transcription	GM12878-XiMat	blood
22	chr4:47567600-47585000	Weak transcription	NHDF-Ad	bronchial
23	chr4:47567600-47588400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr4:47567600-47598400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr4:47567800-47590800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr4:47568000-47579600	Strong transcription	HSMM	muscle
27	chr4:47568000-47592000	Strong transcription	Primary B cells from peripheral blood	blood
28	chr4:47568200-47592200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr4:47568200-47595800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr4:47568800-47577200	Strong transcription	Fetal Lung	lung
31	chr4:47569200-47580000	Weak transcription	Fetal Kidney	kidney
32	chr4:47569800-47582000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr4:47569800-47589400	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr4:47570000-47592200	Strong transcription	Stomach Smooth Muscle	stomach
35	chr4:47570200-47581800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr4:47570200-47592200	Strong transcription	Primary B cells from cord blood	blood
37	chr4:47570400-47591800	Strong transcription	Dnd41	blood
38	chr4:47570400-47595400	Strong transcription	Primary monocytes fromperipheralblood	blood
39	chr4:47570600-47575200	Strong transcription	Fetal Muscle Leg	muscle
40	chr4:47570600-47592000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr4:47570800-47575000	Strong transcription	Fetal Intestine Large	intestine
42	chr4:47570800-47575200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr4:47570800-47575200	Strong transcription	Aorta	Aorta
44	chr4:47570800-47575200	Strong transcription	Lung	lung
45	chr4:47570800-47575400	Strong transcription	Brain Cingulate Gyrus	brain
46	chr4:47570800-47575400	Strong transcription	Fetal Stomach	stomach
47	chr4:47570800-47575600	Strong transcription	Left Ventricle	heart
48	chr4:47570800-47579000	Strong transcription	Ovary	ovary
49	chr4:47570800-47579600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr4:47570800-47580800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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