Variant report

Variant	rs6885974
Chromosome Location	chr5:60195777-60195778
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs16878535	1.00[AMR][1000 genomes]
rs16878537	1.00[AMR][1000 genomes]
rs16878539	1.00[AMR][1000 genomes]
rs16878544	1.00[AMR][1000 genomes]
rs3910825	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647131	0.89[AFR][1000 genomes]
rs55638584	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55659107	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56020025	1.00[AMR][1000 genomes]
rs56043434	1.00[AMR][1000 genomes]
rs56071223	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56113732	1.00[AMR][1000 genomes]
rs56256328	1.00[AMR][1000 genomes]
rs56287212	1.00[AMR][1000 genomes]
rs56306823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56320246	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56376821	1.00[AMR][1000 genomes]
rs56386934	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57108975	1.00[AMR][1000 genomes]
rs57251027	1.00[AMR][1000 genomes]
rs57366470	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57521420	1.00[AMR][1000 genomes]
rs58930565	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59453232	1.00[AMR][1000 genomes]
rs60239490	1.00[AMR][1000 genomes]
rs6449516	1.00[AMR][1000 genomes]
rs6860439	1.00[AMR][1000 genomes]
rs6869855	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6870631	1.00[AMR][1000 genomes]
rs6881713	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6881960	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759411	1.00[AMR][1000 genomes]
rs73759415	1.00[AMR][1000 genomes]
rs73759422	1.00[AMR][1000 genomes]
rs73759426	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759427	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759430	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759431	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759432	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759434	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759435	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759436	0.89[AFR][1000 genomes]
rs73759437	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759447	1.00[AMR][1000 genomes]
rs73759450	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759452	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73759454	1.00[AMR][1000 genomes]
rs73759455	1.00[AMR][1000 genomes]
rs73759456	1.00[AMR][1000 genomes]
rs73759457	1.00[AMR][1000 genomes]
rs73759458	1.00[AMR][1000 genomes]
rs73759459	1.00[AMR][1000 genomes]
rs73759461	1.00[AMR][1000 genomes]
rs73759468	1.00[AMR][1000 genomes]
rs73759469	1.00[AMR][1000 genomes]
rs73759470	1.00[AMR][1000 genomes]
rs73759471	1.00[AMR][1000 genomes]
rs73759475	1.00[AMR][1000 genomes]
rs7701959	1.00[AMR][1000 genomes]
rs7717284	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv934153	chr5:60004982-60309751	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv949662	chr5:60047974-60488379	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
3	nsv1017095	chr5:60050600-60414783	Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
4	nsv933326	chr5:60074031-60413061	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv881712	chr5:60116613-60266875	Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv881713	chr5:60116613-60305125	Strong transcription Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv598305	chr5:60116613-60308836	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv881714	chr5:60116613-60313015	Bivalent Enhancer Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv881715	chr5:60116613-60356423	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv598306	chr5:60129361-60266875	Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv598307	chr5:60129361-60308836	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv881716	chr5:60129361-60313015	Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
13	nsv462199	chr5:60129361-60329624	Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
14	nsv598308	chr5:60129361-60329624	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
15	nsv462200	chr5:60135985-60266875	Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
16	nsv598309	chr5:60135985-60266875	Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
17	nsv598310	chr5:60135985-60308836	ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
18	nsv598311	chr5:60136626-60308836	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
19	nsv520871	chr5:60141245-60320157	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
20	nsv881717	chr5:60141245-60372582	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
21	nsv598312	chr5:60147754-60313015	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
22	nsv881718	chr5:60147754-60313015	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
23	esv2762523	chr5:60166108-60229718	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
24	nsv881719	chr5:60167888-60241826	Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
25	esv1818312	chr5:60169859-60200993	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
26	nsv869065	chr5:60180775-60428760	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
27	nsv1025896	chr5:60190594-60255004	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr5:60167800-60228200	Weak transcription	Psoas Muscle	Psoas
2	chr5:60175800-60239400	Weak transcription	NHEK	skin
3	chr5:60176400-60220400	Weak transcription	Esophagus	oesophagus
4	chr5:60177200-60239600	Weak transcription	HSMMtube	muscle
5	chr5:60177400-60232800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr5:60177600-60213000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr5:60178000-60214200	Weak transcription	Fetal Kidney	kidney
8	chr5:60181000-60218800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr5:60181600-60230800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr5:60181800-60211000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr5:60182000-60213000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr5:60182400-60212200	Weak transcription	NHDF-Ad	bronchial
13	chr5:60182800-60196000	Weak transcription	Brain Anterior Caudate	brain
14	chr5:60183400-60213800	Weak transcription	GM12878-XiMat	blood
15	chr5:60183400-60228000	Weak transcription	Small Intestine	intestine
16	chr5:60185200-60195800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:60185600-60221200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr5:60186200-60212800	Weak transcription	Placenta	Placenta
19	chr5:60187400-60212000	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr5:60187400-60212600	Weak transcription	HepG2	liver
21	chr5:60187600-60223800	Weak transcription	HUVEC	blood vessel
22	chr5:60187600-60239600	Weak transcription	Rectal Smooth Muscle	rectum
23	chr5:60187800-60199800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr5:60187800-60239600	Weak transcription	Brain Angular Gyrus	brain
25	chr5:60188000-60200800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr5:60188000-60216200	Weak transcription	Hela-S3	cervix
27	chr5:60188000-60223400	Weak transcription	Primary B cells from peripheral blood	blood
28	chr5:60188200-60200000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr5:60188200-60201200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr5:60188200-60201600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr5:60188600-60196000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr5:60188600-60215600	Weak transcription	Fetal Heart	heart
33	chr5:60188800-60195800	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr5:60189000-60201000	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr5:60189400-60199400	Weak transcription	Brain Hippocampus Middle	brain
36	chr5:60189400-60199600	Weak transcription	Brain Substantia Nigra	brain
37	chr5:60189400-60240000	Weak transcription	Spleen	Spleen
38	chr5:60189600-60199200	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr5:60189600-60199600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr5:60189600-60201400	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr5:60189600-60211400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr5:60189600-60211400	Weak transcription	Fetal Muscle Trunk	muscle
43	chr5:60189600-60213800	Weak transcription	Aorta	Aorta
44	chr5:60189600-60217200	Weak transcription	A549	lung
45	chr5:60189600-60224000	Weak transcription	Osteobl	bone
46	chr5:60189600-60239600	Weak transcription	Right Ventricle	heart
47	chr5:60189600-60240000	Weak transcription	Pancreas	Pancrea
48	chr5:60189800-60197200	Weak transcription	Primary B cells from cord blood	blood
49	chr5:60189800-60213000	Weak transcription	Fetal Brain Male	brain
50	chr5:60189800-60223600	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links