Variant report

Variant	rs7660448
Chromosome Location	chr4:74542779-74542780
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:74539900..74543106-chr4:75022798..75026628,3	K562	blood:
2	chr4:74541965..74543640-chr4:74544377..74546521,2	MCF-7	breast:
3	chr4:74542033..74544954-chr4:74586027..74588772,2	MCF-7	breast:
4	chr4:74542484..74546380-chr4:74548286..74552440,3	K562	blood:

Variant related genes	Relation type
ENSG00000269559	Chromatin interaction
ENSG00000163738	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10025373	0.96[ASN][1000 genomes]
rs10029200	0.93[ASN][1000 genomes]
rs10938089	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10938091	0.80[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs11722921	1.00[ASN][1000 genomes]
rs11938646	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1247605	0.98[ASN][1000 genomes]
rs1247607	0.98[ASN][1000 genomes]
rs1247608	0.98[ASN][1000 genomes]
rs1247611	0.98[ASN][1000 genomes]
rs1247620	0.98[ASN][1000 genomes]
rs1247633	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1247634	0.98[ASN][1000 genomes]
rs1247635	0.99[ASN][1000 genomes]
rs1247639	0.98[ASN][1000 genomes]
rs1247687	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1247689	0.99[ASN][1000 genomes]
rs12508451	0.85[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1261935	1.00[ASN][1000 genomes]
rs12642878	0.88[ASN][1000 genomes]
rs12643076	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs12643148	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12646031	0.96[ASN][1000 genomes]
rs12649614	0.88[ASN][1000 genomes]
rs1269764	0.98[ASN][1000 genomes]
rs1269766	0.98[ASN][1000 genomes]
rs1358594	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1406498	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1528910	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1528912	0.96[ASN][1000 genomes]
rs1528913	0.96[ASN][1000 genomes]
rs1729722	0.99[ASN][1000 genomes]
rs1745246	0.99[ASN][1000 genomes]
rs1951702	1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs1951703	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1951704	1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs1951705	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2091587	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2141467	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2141468	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2178291	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2367273	1.00[ASN][1000 genomes]
rs2886918	1.00[CHB][hapmap];0.98[ASN][1000 genomes]
rs3796679	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs4127802	1.00[CHB][hapmap];0.92[JPT][hapmap];0.96[ASN][1000 genomes]
rs4259030	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4568212	0.96[ASN][1000 genomes]
rs4637366	0.91[ASN][1000 genomes]
rs4694633	0.98[ASN][1000 genomes]
rs56785010	0.96[ASN][1000 genomes]
rs61101665	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6446943	1.00[CEU][hapmap]
rs6446950	0.91[ASN][1000 genomes]
rs6446951	0.95[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs6446953	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs6446954	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs6818711	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs6836038	0.96[ASN][1000 genomes]
rs6857472	0.96[ASN][1000 genomes]
rs720702	0.90[ASN][1000 genomes]
rs72865497	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72865502	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7655660	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs7656501	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs7656608	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7657356	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs7657358	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7660923	0.88[ASN][1000 genomes]
rs7663473	1.00[CEU][hapmap]
rs7663880	1.00[CEU][hapmap]
rs7665606	0.88[ASN][1000 genomes]
rs7678280	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs7678307	1.00[CHB][hapmap];0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs7680894	1.00[CEU][hapmap]
rs7681278	1.00[CEU][hapmap]
rs7681924	0.88[ASN][1000 genomes]
rs7681932	0.95[ASN][1000 genomes]
rs7682745	0.80[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs7683759	0.88[ASN][1000 genomes]
rs7689702	0.80[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7698909	1.00[CEU][hapmap]
rs942051	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9991585	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530126	chr4:74376622-74843892	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1008104	chr4:74468434-74621952	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv1012198	chr4:74487793-74621952	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv537139	chr4:74487793-74621952	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7660448	RASSF6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74536000-74548400	Weak transcription	Stomach Mucosa	stomach
2	chr4:74539200-74543200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:74540000-74542800	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr4:74540000-74543800	Enhancers	HMEC	breast
5	chr4:74540200-74543400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:74540200-74543400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr4:74540600-74545400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr4:74540600-74548400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:74540800-74545200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr4:74540800-74545200	Weak transcription	NHDF-Ad	bronchial
11	chr4:74540800-74547600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr4:74541200-74543400	Enhancers	Fetal Kidney	kidney
13	chr4:74541400-74543600	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:74541800-74543200	Enhancers	Fetal Lung	lung
15	chr4:74542000-74542800	Enhancers	Ovary	ovary
16	chr4:74542000-74543000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr4:74542000-74543000	Enhancers	Fetal Muscle Leg	muscle
18	chr4:74542000-74543000	Enhancers	Fetal Stomach	stomach
19	chr4:74542000-74543200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr4:74542000-74543200	Enhancers	Liver	Liver
21	chr4:74542000-74543400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr4:74542000-74543400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr4:74542200-74542800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:74542200-74542800	Weak transcription	NHLF	lung
25	chr4:74542200-74543400	Enhancers	A549	lung
26	chr4:74542400-74542800	Enhancers	Psoas Muscle	Psoas
27	chr4:74542400-74542800	Flanking Active TSS	Hela-S3	cervix
28	chr4:74542400-74542800	Flanking Active TSS	NHEK	skin
29	chr4:74542400-74543000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr4:74542400-74543000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr4:74542400-74543200	Enhancers	Skeletal Muscle Male	skeletal muscle
32	chr4:74542400-74543400	Enhancers	HUVEC	blood vessel
33	chr4:74542600-74542800	Enhancers	Adipose Nuclei	Adipose
34	chr4:74542600-74542800	Enhancers	Pancreas	Pancrea
35	chr4:74542600-74542800	Enhancers	Right Atrium	heart
36	chr4:74542600-74542800	Enhancers	GM12878-XiMat	blood
37	chr4:74542600-74543000	Enhancers	Primary B cells from cord blood	blood
38	chr4:74542600-74543000	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr4:74542600-74543000	Enhancers	NH-A	brain
40	chr4:74542600-74543000	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links