Variant report

Variant	rs73288297
Chromosome Location	chr17:18137498-18137499
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:18135795..18137603-chr17:18160135..18163013,2	MCF-7	breast:
2	chr17:18135343..18136871-chr17:18137313..18139125,2	MCF-7	breast:
3	chr17:18136077..18142771-chr17:18143654..18157956,22	MCF-7	breast:
4	chr17:18135872..18138183-chr17:18147458..18150169,3	K562	blood:

Variant related genes	Relation type
ENSG00000177731	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs17855350	1.00[EUR][1000 genomes]
rs28694704	1.00[EUR][1000 genomes]
rs55854919	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56109231	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56180580	1.00[EUR][1000 genomes]
rs56735648	1.00[EUR][1000 genomes]
rs56793258	1.00[EUR][1000 genomes]
rs58115308	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58499955	1.00[EUR][1000 genomes]
rs59738176	1.00[EUR][1000 genomes]
rs59867698	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60320587	1.00[EUR][1000 genomes]
rs60510653	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60699593	1.00[EUR][1000 genomes]
rs60708953	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60814048	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61361031	1.00[EUR][1000 genomes]
rs61576260	1.00[EUR][1000 genomes]
rs7207131	1.00[EUR][1000 genomes]
rs7207489	1.00[EUR][1000 genomes]
rs7213472	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7213789	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7219191	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7226015	1.00[EUR][1000 genomes]
rs73288279	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73288302	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73289913	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73980805	1.00[EUR][1000 genomes]
rs8064901	1.00[EUR][1000 genomes]
rs8068530	1.00[EUR][1000 genomes]
rs8069012	1.00[EUR][1000 genomes]
rs8071028	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8071911	1.00[EUR][1000 genomes]
rs8074322	1.00[EUR][1000 genomes]
rs8080816	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8082574	0.91[AMR][1000 genomes]
rs9910599	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv916653	chr17:17651916-18454952	Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv533142	chr17:17691726-18236686	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
4	nsv482491	chr17:17959577-18153920	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
5	nsv1061162	chr17:17978838-18259234	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv492305	chr17:17980441-18424702	Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
7	nsv907773	chr17:18099962-18206234	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv907774	chr17:18103907-18206234	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
9	nsv907775	chr17:18108496-18206234	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
10	nsv543246	chr17:18121007-18165604	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	21 gene(s)	inside rSNPs	diseases
11	nsv9503	chr17:18121474-18169166	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	21 gene(s)	inside rSNPs	diseases
12	nsv907776	chr17:18122485-18170948	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	21 gene(s)	inside rSNPs	diseases
13	nsv1066718	chr17:18125122-18180807	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
14	nsv907777	chr17:18131087-18163262	Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:18129600-18148400	Weak transcription	Small Intestine	intestine
2	chr17:18130000-18145400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr17:18130000-18148200	Weak transcription	Fetal Kidney	kidney
4	chr17:18130000-18148200	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr17:18130000-18149200	Weak transcription	Psoas Muscle	Psoas
6	chr17:18130200-18138000	Weak transcription	HUVEC	blood vessel
7	chr17:18130200-18139600	Weak transcription	Primary B cells from cord blood	blood
8	chr17:18130200-18145600	Weak transcription	A549	lung
9	chr17:18130200-18147000	Weak transcription	Primary hematopoietic stem cells	blood
10	chr17:18130200-18147000	Weak transcription	Liver	Liver
11	chr17:18130200-18150800	Weak transcription	Right Atrium	heart
12	chr17:18130400-18138000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr17:18130400-18138400	Weak transcription	HSMMtube	muscle
14	chr17:18130400-18138600	Weak transcription	HSMM	muscle
15	chr17:18130400-18139200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr17:18130400-18142400	Weak transcription	Fetal Heart	heart
17	chr17:18130400-18146200	Weak transcription	NHDF-Ad	bronchial
18	chr17:18130400-18148200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr17:18130600-18138600	Weak transcription	NH-A	brain
20	chr17:18130600-18148200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr17:18130800-18138000	Weak transcription	Colon Smooth Muscle	Colon
22	chr17:18131200-18148400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr17:18133200-18137600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr17:18134600-18149600	Strong transcription	Fetal Intestine Small	intestine
25	chr17:18134600-18150800	Weak transcription	Fetal Brain Male	brain
26	chr17:18134600-18150800	Strong transcription	Fetal Stomach	stomach
27	chr17:18134800-18138800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr17:18134800-18142000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr17:18135000-18149400	Strong transcription	Fetal Muscle Trunk	muscle
30	chr17:18135200-18138200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr17:18135200-18138400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr17:18135200-18138400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr17:18135200-18141600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr17:18135200-18149400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr17:18135200-18149400	Strong transcription	Fetal Intestine Large	intestine
36	chr17:18135200-18149600	Strong transcription	HUES6 Cell Line	embryonic stem cell
37	chr17:18135200-18150000	Strong transcription	Fetal Muscle Leg	muscle
38	chr17:18135200-18150600	Strong transcription	Brain Germinal Matrix	brain
39	chr17:18135200-18160000	Strong transcription	Fetal Brain Female	brain
40	chr17:18135400-18138200	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr17:18135400-18138400	Strong transcription	Spleen	Spleen
42	chr17:18135400-18138800	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr17:18135400-18139000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr17:18135400-18139200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr17:18135400-18140400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr17:18135400-18142600	Strong transcription	Dnd41	blood
47	chr17:18135400-18149800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
48	chr17:18135400-18150000	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr17:18135400-18150000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr17:18135400-18159600	Strong transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links