Variant report

Variant	rs2063256
Chromosome Location	chr5:61618703-61618704
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:61600400..61604450-chr5:61613587..61619204,8	MCF-7	breast:
2	chr5:61614359..61618770-chr5:61621420..61626796,7	K562	blood:
3	chr5:61617006..61619910-chr5:61629943..61631558,2	K562	blood:
4	chr5:61614336..61618770-chr5:61621420..61625459,6	K562	blood:

Variant related genes	Relation type
ENSG00000068796	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10079409	0.86[ASN][1000 genomes]
rs1025032	0.81[ASN][1000 genomes]
rs10471542	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1054897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[ASN][1000 genomes]
rs10939936	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10939938	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12153750	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12187566	0.83[YRI][hapmap]
rs12519766	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12658256	0.84[ASN][1000 genomes]
rs16890656	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1808400	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs1848504	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2257389	0.89[YRI][hapmap]
rs2272290	1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[YRI][hapmap];0.85[ASN][1000 genomes]
rs2463078	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs264522	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs264524	0.90[YRI][hapmap]
rs264525	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs264526	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs264529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28720674	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs37032	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs3842912	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3857259	0.92[ASN][1000 genomes]
rs3892140	0.92[ASN][1000 genomes]
rs4700491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4700493	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6863617	0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6864450	0.85[ASN][1000 genomes]
rs6872078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6884054	0.89[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs73104056	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73104058	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7729719	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7734679	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9291759	0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9981	0.89[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	nsv1024090	chr5:61258759-61921150	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2757996	chr5:61403138-61687817	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv2759345	chr5:61403138-61748912	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv830318	chr5:61415713-61623320	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv1020255	chr5:61451792-62031365	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv1027539	chr5:61457762-62000008	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
7	nsv881726	chr5:61556730-61676911	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
8	nsv881727	chr5:61578041-61700970	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv1033578	chr5:61606610-61911153	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:61603200-61629200	Weak transcription	Lung	lung
2	chr5:61603200-61629200	Weak transcription	Spleen	Spleen
3	chr5:61603400-61625200	Weak transcription	Stomach Mucosa	stomach
4	chr5:61603400-61658600	Weak transcription	Aorta	Aorta
5	chr5:61603600-61622200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:61603600-61622400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr5:61603600-61629200	Weak transcription	Psoas Muscle	Psoas
8	chr5:61603800-61629200	Weak transcription	Left Ventricle	heart
9	chr5:61604000-61622200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr5:61604000-61622200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr5:61604000-61622200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr5:61604000-61629000	Weak transcription	Thymus	Thymus
13	chr5:61604400-61627000	Weak transcription	Fetal Muscle Leg	muscle
14	chr5:61604400-61629200	Weak transcription	Esophagus	oesophagus
15	chr5:61604400-61629400	Weak transcription	Pancreas	Pancrea
16	chr5:61604400-61643800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr5:61604600-61630000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr5:61604600-61658600	Weak transcription	Fetal Kidney	kidney
19	chr5:61606600-61619600	Weak transcription	Primary B cells from peripheral blood	blood
20	chr5:61606800-61629400	Weak transcription	Fetal Thymus	thymus
21	chr5:61607200-61625000	Weak transcription	Fetal Brain Female	brain
22	chr5:61607200-61627200	Weak transcription	Fetal Lung	lung
23	chr5:61607200-61629200	Weak transcription	HSMMtube	muscle
24	chr5:61607800-61669400	Weak transcription	NHLF	lung
25	chr5:61608000-61623800	Weak transcription	Rectal Smooth Muscle	rectum
26	chr5:61608800-61620800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr5:61608800-61622200	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr5:61608800-61623600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr5:61608800-61625000	Weak transcription	HSMM	muscle
30	chr5:61610200-61658600	Weak transcription	Ovary	ovary
31	chr5:61610400-61629400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr5:61611000-61622600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr5:61611400-61629200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr5:61611600-61622200	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr5:61611600-61630200	Weak transcription	Fetal Intestine Large	intestine
36	chr5:61611600-61639000	Weak transcription	HMEC	breast
37	chr5:61611600-61643800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr5:61611800-61630000	Weak transcription	NHEK	skin
39	chr5:61612000-61622200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr5:61612000-61642400	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr5:61612000-61661000	Weak transcription	Colon Smooth Muscle	Colon
42	chr5:61612200-61622400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr5:61612200-61628600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr5:61612400-61623200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr5:61612400-61624000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr5:61613600-61620000	Weak transcription	GM12878-XiMat	blood
47	chr5:61614600-61629000	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr5:61615400-61621600	Weak transcription	Brain Angular Gyrus	brain
49	chr5:61615400-61623600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr5:61615600-61622000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links