Variant report

Variant	rs237017
Chromosome Location	chr6:149744114-149744115
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs12110948	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs173140	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2031450	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs236997	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236998	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs236999	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs237000	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs237004	0.86[ASN][1000 genomes]
rs237006	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs237007	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs237008	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237013	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs237014	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237015	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs237020	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs237022	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs237027	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237030	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237031	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237032	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237033	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237036	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs237037	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs365469	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs389996	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs414956	0.80[ASN][1000 genomes]
rs416262	0.82[ASN][1000 genomes]
rs421037	0.81[ASN][1000 genomes]
rs425540	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs430192	0.82[ASN][1000 genomes]
rs473864	0.89[EUR][1000 genomes]
rs474587	0.89[EUR][1000 genomes]
rs474726	0.89[EUR][1000 genomes]
rs480670	0.87[EUR][1000 genomes]
rs483877	0.89[EUR][1000 genomes]
rs484969	0.89[EUR][1000 genomes]
rs500860	0.82[AMR][1000 genomes]
rs505765	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs506573	0.87[EUR][1000 genomes]
rs506779	0.89[EUR][1000 genomes]
rs520551	0.89[EUR][1000 genomes]
rs520683	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs524092	0.89[EUR][1000 genomes]
rs537843	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs538706	0.89[EUR][1000 genomes]
rs543711	0.89[EUR][1000 genomes]
rs548083	0.89[EUR][1000 genomes]
rs548925	0.87[EUR][1000 genomes]
rs551627	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs558044	0.89[EUR][1000 genomes]
rs567816	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs569730	0.87[EUR][1000 genomes]
rs573684	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs579666	0.89[EUR][1000 genomes]
rs580499	0.86[EUR][1000 genomes]
rs6916134	0.92[EUR][1000 genomes]
rs6926840	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7742990	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7752947	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv522875	chr6:149643709-149762537	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149709600-149750200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:149721800-149744800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:149721800-149745200	Weak transcription	Pancreas	Pancrea
4	chr6:149722000-149745000	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:149725200-149744600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:149728200-149744600	Weak transcription	Fetal Intestine Small	intestine
7	chr6:149730600-149744400	Weak transcription	NHDF-Ad	bronchial
8	chr6:149731600-149744200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:149731600-149744400	Weak transcription	Brain Anterior Caudate	brain
10	chr6:149731600-149744600	Weak transcription	NHLF	lung
11	chr6:149731600-149745200	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr6:149731600-149745200	Weak transcription	Left Ventricle	heart
13	chr6:149731600-149745200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:149731800-149744400	Weak transcription	Brain Substantia Nigra	brain
15	chr6:149731800-149744400	Weak transcription	HSMMtube	muscle
16	chr6:149731800-149745200	Weak transcription	Fetal Brain Female	brain
17	chr6:149732000-149744400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:149732000-149744600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr6:149732200-149744400	Weak transcription	Ovary	ovary
20	chr6:149732200-149744400	Weak transcription	Osteobl	bone
21	chr6:149732200-149745000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:149732400-149744400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr6:149732400-149744400	Weak transcription	Brain Hippocampus Middle	brain
24	chr6:149732400-149745200	Weak transcription	Brain Germinal Matrix	brain
25	chr6:149732600-149744600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:149732600-149744600	Weak transcription	Fetal Lung	lung
27	chr6:149732600-149744800	Weak transcription	NH-A	brain
28	chr6:149732600-149745400	Weak transcription	Dnd41	blood
29	chr6:149732800-149744600	Weak transcription	HSMM	muscle
30	chr6:149732800-149744800	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr6:149733200-149744800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:149733400-149744600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:149733400-149744800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr6:149733600-149744800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:149735000-149744400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr6:149735400-149744400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:149735600-149744200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:149735600-149744400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr6:149735600-149744800	Weak transcription	Adipose Nuclei	Adipose
40	chr6:149736200-149744200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:149739800-149744800	Weak transcription	Fetal Muscle Leg	muscle
42	chr6:149742000-149745000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:149743800-149744400	Enhancers	Placenta	Placenta
44	chr6:149743800-149744400	Enhancers	Lung	lung
45	chr6:149744000-149744600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr6:149744000-149745600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr6:149744000-149746800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links