Variant report

Variant	rs17024209
Chromosome Location	chr2:101017758-101017759
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:101016960..101019506-chr2:101020404..101023355,2	K562	blood:
2	chr2:101011107..101013271-chr2:101016164..101018309,3	K562	blood:
3	chr2:101005691..101009453-chr2:101017314..101020656,3	MCF-7	breast:
4	chr2:101016960..101020223-chr2:101021855..101026333,5	K562	blood:

Extended variants
information (count: 133 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10167159	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10172841	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.88[ASN][1000 genomes]
rs10180570	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10180685	0.88[ASN][1000 genomes]
rs10183063	0.84[ASN][1000 genomes]
rs10184899	0.86[AMR][1000 genomes]
rs10193535	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10206374	0.96[GIH][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs1057056	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.82[YRI][hapmap];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1057063	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1057064	1.00[CHB][hapmap]
rs1124009	1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11898693	1.00[CEU][hapmap]
rs13391930	0.86[AMR][1000 genomes]
rs13396147	0.86[AMR][1000 genomes]
rs13400841	1.00[ASW][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.86[MEX][hapmap];0.80[MKK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13404823	0.86[AMR][1000 genomes]
rs13407408	0.86[AMR][1000 genomes]
rs13407648	0.86[AMR][1000 genomes]
rs13407891	0.86[AMR][1000 genomes]
rs13410582	0.86[AMR][1000 genomes]
rs13419808	0.86[AMR][1000 genomes]
rs1347721	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1370627	1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1437972	1.00[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.86[MEX][hapmap];0.86[ASN][1000 genomes]
rs1465829	0.85[CHD][hapmap]
rs17024034	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs17024035	1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs17024129	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs17024133	0.90[GIH][hapmap];0.86[MEX][hapmap]
rs17024136	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs17024144	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs17024203	0.85[CHD][hapmap]
rs17024207	0.85[CHD][hapmap]
rs1898571	0.86[AMR][1000 genomes]
rs1898573	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs2083148	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs2309801	1.00[ASW][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.86[MEX][hapmap];0.80[MKK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3748934	0.85[CHD][hapmap]
rs3748936	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3791358	1.00[CHB][hapmap];0.90[GIH][hapmap];0.84[ASN][1000 genomes]
rs4149506	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4149509	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4149514	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4149515	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4149516	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs4149522	0.85[CHD][hapmap]
rs4850932	0.88[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];0.93[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs55640826	0.86[AMR][1000 genomes]
rs55843950	0.86[AMR][1000 genomes]
rs55932868	0.82[ASN][1000 genomes]
rs56118658	0.86[AMR][1000 genomes]
rs56656536	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs56741959	0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs57862179	0.97[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs58164864	0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs58674788	0.82[ASN][1000 genomes]
rs59340778	0.83[EUR][1000 genomes]
rs59701896	0.82[ASN][1000 genomes]
rs59858985	0.82[ASN][1000 genomes]
rs60468180	0.88[ASN][1000 genomes]
rs60566188	0.82[ASN][1000 genomes]
rs60609848	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs60898093	0.86[AMR][1000 genomes]
rs61321970	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61559573	0.83[EUR][1000 genomes]
rs61710328	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6542933	0.82[ASN][1000 genomes]
rs6542945	0.86[ASN][1000 genomes]
rs6542946	0.94[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.86[ASN][1000 genomes]
rs6542948	1.00[CEU][hapmap]
rs6706707	0.82[ASN][1000 genomes]
rs6716009	0.86[AMR][1000 genomes]
rs6716367	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6724695	0.86[AMR][1000 genomes]
rs6725672	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6727124	1.00[CEU][hapmap]
rs6728575	1.00[CHB][hapmap];0.93[GIH][hapmap];0.82[ASN][1000 genomes]
rs6732285	0.93[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap]
rs6736938	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6737074	1.00[CEU][hapmap]
rs6738566	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs6739589	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6749572	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6750040	1.00[CHB][hapmap]
rs6754869	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6755285	0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6758161	0.86[AMR][1000 genomes]
rs6758622	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6761084	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs72960184	0.86[AMR][1000 genomes]
rs72960186	0.86[AMR][1000 genomes]
rs72960202	0.86[AMR][1000 genomes]
rs73966105	0.82[ASN][1000 genomes]
rs73966106	0.82[ASN][1000 genomes]
rs73968413	0.82[ASN][1000 genomes]
rs7559084	0.82[ASN][1000 genomes]
rs7559939	0.86[AMR][1000 genomes]
rs7559946	0.86[AMR][1000 genomes]
rs7561065	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7562184	0.82[ASN][1000 genomes]
rs7562461	0.86[AMR][1000 genomes]
rs7562479	0.86[AMR][1000 genomes]
rs7562486	0.86[AMR][1000 genomes]
rs7562615	0.86[AMR][1000 genomes]
rs7562636	0.82[ASN][1000 genomes]
rs7562754	0.82[ASN][1000 genomes]
rs7564178	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7565502	0.82[ASN][1000 genomes]
rs7566156	1.00[CEU][hapmap]
rs7567130	0.84[ASN][1000 genomes]
rs7571410	0.82[ASN][1000 genomes]
rs7571651	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs7571659	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.88[ASN][1000 genomes]
rs7572119	0.86[AMR][1000 genomes]
rs7574684	0.86[AMR][1000 genomes]
rs7575422	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7576749	0.86[AMR][1000 genomes]
rs7582096	1.00[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];0.87[LWK][hapmap];0.86[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7582546	0.86[AMR][1000 genomes]
rs7585713	1.00[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap];0.93[LWK][hapmap];0.86[MEX][hapmap];0.94[MKK][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7585898	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs7587333	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7596483	0.97[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7598205	1.00[CHB][hapmap];0.93[GIH][hapmap];0.82[ASN][1000 genomes]
rs7598227	0.82[ASN][1000 genomes]
rs7605834	0.82[ASN][1000 genomes]
rs876439	1.00[CHB][hapmap];0.93[GIH][hapmap];0.82[ASN][1000 genomes]
rs9308834	0.96[AMR][1000 genomes];0.83[EUR][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	nsv1007777	chr2:100816913-101308914	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv535844	chr2:100816913-101308914	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv582531	chr2:100908508-101207639	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	nsv874701	chr2:100976139-101023261	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100993200-101017800	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr2:100998200-101022600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr2:101002000-101023400	Weak transcription	Psoas Muscle	Psoas
4	chr2:101003200-101021000	Weak transcription	K562	blood
5	chr2:101005600-101032800	Weak transcription	HUVEC	blood vessel
6	chr2:101005800-101033000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr2:101006000-101021600	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:101006400-101018400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr2:101006600-101023600	Strong transcription	Brain Germinal Matrix	brain
10	chr2:101006600-101031600	Strong transcription	Fetal Stomach	stomach
11	chr2:101007000-101025000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr2:101007000-101027200	Strong transcription	Stomach Smooth Muscle	stomach
13	chr2:101007200-101018600	Weak transcription	Rectal Smooth Muscle	rectum
14	chr2:101007200-101032000	Weak transcription	NHDF-Ad	bronchial
15	chr2:101007400-101021600	Weak transcription	HSMMtube	muscle
16	chr2:101007600-101023400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr2:101007600-101024200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr2:101007600-101030600	Weak transcription	NH-A	brain
19	chr2:101007800-101021200	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr2:101007800-101023800	Strong transcription	Fetal Muscle Trunk	muscle
21	chr2:101007800-101024000	Weak transcription	Liver	Liver
22	chr2:101008000-101033000	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr2:101008400-101019200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr2:101008400-101025200	Weak transcription	Fetal Brain Male	brain
25	chr2:101009000-101022000	Weak transcription	Esophagus	oesophagus
26	chr2:101009200-101023600	Strong transcription	Cortex derived primary cultured neurospheres	brain
27	chr2:101009400-101026400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:101010000-101021800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr2:101010000-101022200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr2:101010000-101022200	Weak transcription	Fetal Kidney	kidney
31	chr2:101010200-101018000	Weak transcription	Fetal Thymus	thymus
32	chr2:101010200-101018000	Weak transcription	HepG2	liver
33	chr2:101010200-101032800	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr2:101010800-101022000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr2:101011000-101022200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr2:101011800-101020000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr2:101012000-101024000	Weak transcription	Fetal Heart	heart
38	chr2:101012400-101021600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr2:101012600-101017800	Weak transcription	Primary B cells from cord blood	blood
40	chr2:101012800-101018400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr2:101013000-101021200	Weak transcription	Primary B cells from peripheral blood	blood
42	chr2:101013200-101030400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr2:101013200-101033000	Weak transcription	Fetal Intestine Large	intestine
44	chr2:101013600-101020000	Strong transcription	Brain Inferior Temporal Lobe	brain
45	chr2:101013800-101018600	Weak transcription	Thymus	Thymus
46	chr2:101013800-101019600	Weak transcription	Primary T cells from cord blood	blood
47	chr2:101013800-101021400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr2:101014000-101017800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr2:101014200-101018600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr2:101014400-101017800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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