Variant report

Variant	rs10904530
Chromosome Location	chr10:5631244-5631245
allele	A/C
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:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5625670..5627432-chr10:5629113..5631880,2	K562	blood:
2	chr10:5610864..5613331-chr10:5629489..5631298,2	K562	blood:
3	chr10:5606603..5608938-chr10:5627234..5631685,4	MCF-7	breast:
4	chr10:5616972..5619862-chr10:5631106..5633140,2	K562	blood:
5	chr10:5624309..5631245-chr10:5648674..5654250,8	MCF-7	breast:
6	chr10:5623673..5635207-chr10:5656121..5669428,27	MCF-7	breast:
7	chr10:5527980..5531416-chr10:5628213..5631359,3	MCF-7	breast:
8	chr10:5558375..5560423-chr10:5631236..5633723,2	MCF-7	breast:
9	chr10:5630058..5631900-chr10:5703072..5705315,2	MCF-7	breast:
10	chr10:5629667..5631405-chr10:5641253..5642832,2	MCF-7	breast:
11	chr10:5624590..5636573-chr10:5652742..5661113,15	MCF-7	breast:
12	chr10:5584975..5598212-chr10:5621607..5634806,86	MCF-7	breast:
13	chr10:5486586..5497147-chr10:5622068..5633259,25	MCF-7	breast:
14	chr10:5629660..5633537-chr10:5634085..5636643,3	K562	blood:
15	chr10:5487228..5489563-chr10:5631145..5633414,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000228951	Chromatin interaction
ENSG00000228685	Chromatin interaction
ENSG00000231483	Chromatin interaction
ENSG00000173848	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10904528	0.92[ASN][1000 genomes]
rs11253248	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11253249	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11253250	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers 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	68 gene(s)	inside rSNPs	diseases
2	nsv932104	chr10:5203626-5641023	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
3	nsv549886	chr10:5205437-5632060	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
4	nsv1054865	chr10:5225305-5638119	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
5	nsv831774	chr10:5463556-5657421	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
6	nsv894798	chr10:5503610-5670275	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS 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	24 gene(s)	inside rSNPs	diseases
7	nsv523491	chr10:5542109-5720067	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
8	esv2757364	chr10:5557024-5720512	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
9	esv2759729	chr10:5557024-5804780	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
10	nsv894801	chr10:5600202-5631737	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv894802	chr10:5608202-5631737	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5625000-5631800	Weak transcription	K562	blood
2	chr10:5625000-5632400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr10:5625200-5634400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr10:5626000-5634600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr10:5626200-5636200	Weak transcription	Primary B cells from cord blood	blood
6	chr10:5626400-5633600	Enhancers	Fetal Thymus	thymus
7	chr10:5626600-5631800	Enhancers	Fetal Heart	heart
8	chr10:5627400-5639400	Enhancers	Fetal Muscle Leg	muscle
9	chr10:5627600-5631400	Weak transcription	Osteobl	bone
10	chr10:5628200-5631600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr10:5628200-5631800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr10:5628200-5631800	Weak transcription	HSMM	muscle
13	chr10:5628400-5631400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr10:5628400-5631800	Weak transcription	NHDF-Ad	bronchial
15	chr10:5628600-5633200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr10:5628600-5634400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr10:5628600-5636200	Weak transcription	Fetal Kidney	kidney
18	chr10:5628800-5632000	Enhancers	Adipose Nuclei	Adipose
19	chr10:5628800-5633400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:5629000-5635000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
21	chr10:5629200-5631600	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr10:5629200-5631600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr10:5629400-5631600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr10:5629400-5631600	Weak transcription	NH-A	brain
25	chr10:5629400-5631800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr10:5629400-5634600	Enhancers	Placenta	Placenta
27	chr10:5629600-5631400	Weak transcription	HSMMtube	muscle
28	chr10:5629800-5631400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:5629800-5631600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr10:5629800-5631800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr10:5629800-5632000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr10:5629800-5632000	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr10:5629800-5632200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr10:5629800-5632800	Weak transcription	Fetal Intestine Small	intestine
35	chr10:5629800-5633000	Weak transcription	Fetal Intestine Large	intestine
36	chr10:5629800-5634200	Weak transcription	Pancreas	Pancrea
37	chr10:5630000-5631800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr10:5630000-5631800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr10:5630000-5631800	Weak transcription	HUVEC	blood vessel
40	chr10:5630000-5634200	Weak transcription	Right Atrium	heart
41	chr10:5630000-5636200	Weak transcription	Fetal Lung	lung
42	chr10:5630400-5632600	Enhancers	Hela-S3	cervix
43	chr10:5630400-5633200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr10:5630400-5633800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr10:5630600-5631600	Enhancers	Psoas Muscle	Psoas
46	chr10:5630600-5631800	Weak transcription	Stomach Smooth Muscle	stomach
47	chr10:5630600-5632000	Enhancers	HMEC	breast
48	chr10:5630800-5632400	Enhancers	NHEK	skin
49	chr10:5630800-5633800	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr10:5630800-5636400	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links