Variant report

Variant	rs2529409
Chromosome Location	chr7:50745919-50745920
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:50745193..50745927-chr7:115734999..115735785,2	MCF-7	breast:
2	chr7:50736808..50739059-chr7:50744973..50747020,2	K562	blood:
3	chr7:50723989..50725501-chr7:50744305..50746937,2	K562	blood:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1004402	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1019002	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10216232	1.00[CEU][hapmap];0.80[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1024532	0.84[EUR][1000 genomes]
rs13236710	1.00[YRI][hapmap]
rs1468449	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs1548609	1.00[CEU][hapmap]
rs2011899	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2108350	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2190497	0.91[JPT][hapmap]
rs2190501	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2190503	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237469	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237481	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237488	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2329492	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2529400	1.00[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2529404	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2529407	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715102	1.00[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715105	1.00[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715110	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2715117	0.91[JPT][hapmap]
rs2715118	1.00[CEU][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2715125	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2715128	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2715134	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800999	0.84[EUR][1000 genomes]
rs4947432	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4947444	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs4947446	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs4947804	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4947835	0.85[EUR][1000 genomes]
rs4947836	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4947837	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4947842	0.82[EUR][1000 genomes]
rs4947866	1.00[CEU][hapmap]
rs6593140	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6593142	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6593171	0.84[EUR][1000 genomes]
rs6945302	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs6973119	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6978627	0.85[EUR][1000 genomes]
rs757775	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7791286	0.85[CEU][hapmap]
rs886821	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs962508	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs977791	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs990358	1.00[CEU][hapmap];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016665	chr7:50452552-51404524	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv1015758	chr7:50565404-50768153	Flanking Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1023228	chr7:50573214-50777634	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1032882	chr7:50611138-50775257	Genic enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv538834	chr7:50611138-50775257	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv1031138	chr7:50651793-50814881	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:50707200-50748600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr7:50710000-50758200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr7:50730200-50748600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr7:50731800-50750000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr7:50732600-50749200	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr7:50734200-50748800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr7:50736600-50755200	Weak transcription	NHDF-Ad	bronchial
8	chr7:50738800-50765400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr7:50739000-50746400	Weak transcription	Ovary	ovary
10	chr7:50741000-50746000	Weak transcription	Thymus	Thymus
11	chr7:50742000-50753000	Weak transcription	Osteobl	bone
12	chr7:50742200-50746400	Weak transcription	HSMMtube	muscle
13	chr7:50742200-50748200	Enhancers	Brain Anterior Caudate	brain
14	chr7:50742200-50749400	Weak transcription	Placenta	Placenta
15	chr7:50742200-50749400	Enhancers	Rectal Smooth Muscle	rectum
16	chr7:50742200-50749800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr7:50742200-50758200	Weak transcription	Brain Germinal Matrix	brain
18	chr7:50742200-50765200	Weak transcription	NHLF	lung
19	chr7:50742400-50746800	Weak transcription	A549	lung
20	chr7:50742400-50747000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr7:50742400-50747400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr7:50742400-50747600	Enhancers	Brain Substantia Nigra	brain
23	chr7:50742400-50753600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr7:50742400-50755000	Weak transcription	Esophagus	oesophagus
25	chr7:50742400-50755000	Weak transcription	NH-A	brain
26	chr7:50742400-50755200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr7:50742600-50746000	Enhancers	Psoas Muscle	Psoas
28	chr7:50742600-50746200	Enhancers	Colon Smooth Muscle	Colon
29	chr7:50742600-50747400	Enhancers	Brain Inferior Temporal Lobe	brain
30	chr7:50742600-50748800	Weak transcription	Fetal Lung	lung
31	chr7:50742600-50749000	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr7:50742600-50749000	Weak transcription	HUVEC	blood vessel
33	chr7:50742600-50749200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr7:50742600-50749400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr7:50742600-50757000	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr7:50742600-50762200	Weak transcription	Hela-S3	cervix
37	chr7:50742600-50763000	Weak transcription	HSMM	muscle
38	chr7:50742600-50792000	Weak transcription	Primary T cells from cord blood	blood
39	chr7:50742800-50746000	Enhancers	Duodenum Smooth Muscle	Duodenum
40	chr7:50742800-50747400	Enhancers	Brain Angular Gyrus	brain
41	chr7:50742800-50748800	Weak transcription	Fetal Stomach	stomach
42	chr7:50742800-50749400	Weak transcription	Spleen	Spleen
43	chr7:50742800-50756200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr7:50742800-50757600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr7:50743000-50746800	Enhancers	Pancreas	Pancrea
46	chr7:50743000-50750200	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr7:50743000-50750200	Enhancers	Skeletal Muscle Female	skeletal muscle
48	chr7:50743000-50755000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr7:50743000-50755200	Weak transcription	K562	blood
50	chr7:50743000-50756400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links