Variant report

Variant	rs10904204
Chromosome Location	chr10:4284196-4284197
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:4280040..4281988-chr10:4283638..4285219,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10508279	0.96[CHD][hapmap];0.86[JPT][hapmap]
rs10795146	0.82[CEU][hapmap];0.96[CHD][hapmap];0.86[JPT][hapmap]
rs10904203	0.80[EUR][1000 genomes]
rs10904206	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10904207	0.82[CEU][hapmap];0.96[CHD][hapmap];0.86[JPT][hapmap]
rs10904208	0.82[CEU][hapmap];0.96[CHD][hapmap];0.86[JPT][hapmap]
rs10904211	0.88[CHD][hapmap]
rs1535448	0.98[ASN][1000 genomes]
rs1570291	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2065089	0.96[CHD][hapmap]
rs4584476	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4881303	0.82[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6601824	0.82[CEU][hapmap];1.00[CHB][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs927411	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1799113	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv1800792	chr10:4259123-4332824	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1820112	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv1822419	chr10:4259123-4332824	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv1839293	chr10:4259123-4332824	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv1841782	chr10:4259123-4332824	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1044535	chr10:4271872-4306421	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1051538	chr10:4274395-4291004	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1053322	chr10:4279301-4306798	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4276000-4292200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:4282000-4286200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr10:4282200-4286400	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr10:4282400-4284200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr10:4282400-4285000	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr10:4282800-4284800	Active TSS	Right Atrium	heart
7	chr10:4282800-4285000	Enhancers	H9 Cell Line	embryonic stem cell
8	chr10:4282800-4285000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr10:4282800-4285200	Enhancers	H1 Cell Line	embryonic stem cell
10	chr10:4282800-4285200	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr10:4282800-4285600	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr10:4282800-4285600	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr10:4282800-4285600	Enhancers	Fetal Muscle Leg	muscle
14	chr10:4282800-4285800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr10:4282800-4286000	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr10:4282800-4286000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr10:4282800-4286600	Active TSS	Stomach Smooth Muscle	stomach
18	chr10:4282800-4287200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr10:4283000-4284200	Active TSS	Skeletal Muscle Female	skeletal muscle
20	chr10:4283000-4285000	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr10:4283000-4286000	Active TSS	Aorta	Aorta
22	chr10:4283200-4284200	Enhancers	Fetal Heart	heart
23	chr10:4283200-4285200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr10:4283200-4285200	Enhancers	Fetal Stomach	stomach
25	chr10:4283200-4285600	Flanking Active TSS	HMEC	breast
26	chr10:4283200-4285800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr10:4283200-4286000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr10:4283200-4286600	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr10:4283200-4286800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:4283400-4284200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr10:4283400-4284400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr10:4283400-4285200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr10:4283400-4285400	Enhancers	Fetal Lung	lung
34	chr10:4283600-4284200	Weak transcription	Psoas Muscle	Psoas
35	chr10:4283600-4284600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr10:4283600-4284800	Active TSS	Duodenum Smooth Muscle	Duodenum
37	chr10:4283600-4285000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:4283600-4285000	Enhancers	Fetal Intestine Small	intestine
39	chr10:4283600-4285200	Flanking Active TSS	Adipose Nuclei	Adipose
40	chr10:4283600-4285400	Flanking Active TSS	Dnd41	blood
41	chr10:4283600-4286400	Flanking Active TSS	HUVEC	blood vessel
42	chr10:4283600-4287400	Enhancers	Hela-S3	cervix
43	chr10:4283800-4284200	Active TSS	Colon Smooth Muscle	Colon
44	chr10:4283800-4284200	Enhancers	HSMM	muscle
45	chr10:4283800-4284400	Enhancers	Rectal Smooth Muscle	rectum
46	chr10:4283800-4284400	Active TSS	NHDF-Ad	bronchial
47	chr10:4283800-4284800	Active TSS	Skeletal Muscle Male	skeletal muscle
48	chr10:4283800-4286000	Active TSS	Right Ventricle	heart
49	chr10:4284000-4284200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr10:4284000-4284200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links