Variant report

Variant	rs10488229
Chromosome Location	chr7:12754037-12754038
allele	C/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:12725982..12739416-chr7:12748956..12757396,41	K562	blood:
2	chr7:12753228..12755385-chr7:16301600..16303385,2	K562	blood:
3	chr7:12752442..12758611-chr7:12777091..12782449,9	K562	blood:
4	chr7:12753064..12757665-chr7:12839772..12843667,5	K562	blood:
5	chr7:12752071..12754735-chr7:12837199..12839155,2	K562	blood:
6	chr7:12440310..12444611-chr7:12752169..12755204,3	K562	blood:
7	chr7:12752598..12755770-chr7:12846803..12850536,3	K562	blood:
8	chr7:12753027..12755219-chr7:12963592..12965735,2	K562	blood:
9	chr7:12753447..12755088-chr7:13019924..13021549,2	K562	blood:
10	chr7:12753829..12756201-chr7:12954275..12956490,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000146530	Chromatin interaction
ENSG00000122644	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10278922	0.83[CEU][hapmap]
rs10950412	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.88[TSI][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11981235	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11981294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.88[TSI][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1546770	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4410798	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.96[LWK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62449844	0.94[AFR][1000 genomes]
rs6949140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6967467	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7785696	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7801894	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024554	chr7:12214722-12967418	Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv538735	chr7:12214722-12967418	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv830907	chr7:12661239-12818250	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv932020	chr7:12676890-13239551	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	nsv830908	chr7:12695007-12870475	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	esv1794967	chr7:12710385-12758624	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	n/a
7	nsv868830	chr7:12712753-13517417	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
8	esv2422346	chr7:12739291-12883550	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1027501	chr7:12743592-12927109	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv887641	chr7:12747443-12782062	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:12746800-12755000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr7:12747000-12755000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr7:12747000-12755000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr7:12747000-12755000	Weak transcription	NH-A	brain
5	chr7:12750000-12754800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr7:12750000-12754800	Weak transcription	Osteobl	bone
7	chr7:12750000-12755200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr7:12750200-12755000	Weak transcription	NHEK	skin
9	chr7:12750400-12754800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr7:12750600-12754800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr7:12750600-12755000	Weak transcription	Brain Substantia Nigra	brain
12	chr7:12750600-12755000	Weak transcription	HSMMtube	muscle
13	chr7:12750600-12755000	Weak transcription	NHDF-Ad	bronchial
14	chr7:12750800-12754800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr7:12750800-12754800	Weak transcription	HSMM	muscle
16	chr7:12750800-12755000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr7:12751000-12755600	Weak transcription	Spleen	Spleen
18	chr7:12751600-12755200	Weak transcription	Placenta	Placenta
19	chr7:12751800-12754600	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr7:12751800-12754800	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr7:12751800-12755000	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr7:12752200-12754800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr7:12752200-12754800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr7:12752200-12755000	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr7:12752200-12755000	Weak transcription	Adipose Nuclei	Adipose
26	chr7:12752200-12755000	Enhancers	Fetal Intestine Small	intestine
27	chr7:12752400-12754200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr7:12752400-12754600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr7:12752400-12754800	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr7:12752400-12754800	Weak transcription	Hela-S3	cervix
31	chr7:12752400-12755600	Active TSS	K562	blood
32	chr7:12752800-12754600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr7:12752800-12755000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr7:12752800-12755000	Enhancers	Muscle Satellite Cultured Cells	--
35	chr7:12752800-12756800	Enhancers	Fetal Intestine Large	intestine
36	chr7:12753000-12754200	Flanking Active TSS	A549	lung
37	chr7:12753000-12754400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr7:12753000-12755000	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr7:12753200-12754200	Enhancers	ES-I3 Cell Line	embryonic stem cell
40	chr7:12753200-12754800	Weak transcription	Duodenum Mucosa	Duodenum
41	chr7:12753200-12755000	Enhancers	HMEC	breast
42	chr7:12753400-12755000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr7:12753400-12755000	Enhancers	Cortex derived primary cultured neurospheres	brain
44	chr7:12753400-12756600	Enhancers	Stomach Mucosa	stomach
45	chr7:12753600-12754600	Weak transcription	HUVEC	blood vessel
46	chr7:12753600-12754800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr7:12753600-12754800	Enhancers	Rectal Mucosa Donor 29	rectum
48	chr7:12753600-12755000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr7:12753600-12757000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr7:12753800-12754200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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