Variant report

Variant	rs58697749
Chromosome Location	chr6:142872771-142872772
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11155253	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11155254	0.80[ASN][1000 genomes]
rs12190036	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12191805	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12191946	0.82[ASN][1000 genomes]
rs12194448	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12197895	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12199515	0.82[ASN][1000 genomes]
rs12202680	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12203291	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12203643	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12203842	0.86[ASN][1000 genomes]
rs12206762	0.82[ASN][1000 genomes]
rs12208034	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12208386	0.88[ASN][1000 genomes]
rs12208860	0.80[ASN][1000 genomes]
rs12209687	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12209912	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17071853	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17071855	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28883110	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4339484	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs5005418	0.82[ASN][1000 genomes]
rs55669522	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55786645	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57589155	0.82[EUR][1000 genomes]
rs57818992	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57876681	0.80[ASN][1000 genomes]
rs57879296	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58539996	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59695424	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61126241	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73588317	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73588318	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73588321	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73590133	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73590163	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73590192	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73590199	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7746631	1.00[EUR][1000 genomes]
rs7751673	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7755667	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7756064	0.82[ASN][1000 genomes]
rs7766583	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7770363	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1023426	chr6:142813845-142940262	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830827	chr6:142840734-143015005	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv520479	chr6:142869099-142908146	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142869400-142872800	Enhancers	Dnd41	blood
2	chr6:142869600-142873200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
3	chr6:142871000-142873200	Enhancers	HSMMtube	muscle
4	chr6:142871400-142872800	Enhancers	H1 Cell Line	embryonic stem cell
5	chr6:142871400-142873000	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr6:142871400-142873200	Enhancers	Fetal Stomach	stomach
7	chr6:142871400-142873200	Enhancers	HSMM	muscle
8	chr6:142871400-142873400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:142871600-142873200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr6:142871600-142873600	Enhancers	Fetal Lung	lung
11	chr6:142871800-142872800	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr6:142871800-142873000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:142871800-142873000	Enhancers	Fetal Muscle Leg	muscle
14	chr6:142871800-142873000	Enhancers	Fetal Thymus	thymus
15	chr6:142872000-142873200	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr6:142872000-142873600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:142872200-142872800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr6:142872200-142872800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:142872200-142873200	Flanking Active TSS	HMEC	breast
20	chr6:142872200-142873600	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr6:142872400-142872800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
22	chr6:142872400-142872800	Enhancers	Esophagus	oesophagus
23	chr6:142872400-142873000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:142872400-142873000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:142872400-142873000	Flanking Active TSS	Primary T cells from cord blood	blood
26	chr6:142872400-142873000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:142872400-142873000	Enhancers	NH-A	brain
28	chr6:142872400-142873000	Bivalent Enhancer	Osteobl	bone
29	chr6:142872400-142873200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:142872400-142873200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:142872400-142873200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:142872400-142873200	Flanking Active TSS	NHEK	skin
33	chr6:142872600-142872800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr6:142872600-142872800	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr6:142872600-142873000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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