Variant report

Variant	rs17024144
Chromosome Location	chr2:100997711-100997712
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:100929398..100931678-chr2:100996372..100997972,2	MCF-7	breast:
2	chr2:100997391..100997927-chr2:101033193..101033968,2	K562	blood:
3	chr2:100993432..100995789-chr2:100996356..101000421,3	MCF-7	breast:
4	chr2:100938015..100940473-chr2:100996215..100998550,2	MCF-7	breast:
5	chr2:100876921..100878044-chr2:100997529..100998340,3	K562	blood:
6	chr2:100935841..100941857-chr2:100994239..100999137,10	MCF-7	breast:
7	chr2:100948566..100950699-chr2:100996503..100999305,2	MCF-7	breast:
8	chr2:100879014..100880290-chr2:100996973..100998375,14	MCF-7	breast:
9	chr2:100879064..100881407-chr2:100995755..100997926,2	MCF-7	breast:
10	chr2:100879002..100880063-chr2:100997058..100998343,16	K562	blood:
11	chr2:100879538..100882324-chr2:100997148..100999521,3	K562	blood:
12	chr2:100887151..100889379-chr2:100995251..100997731,2	MCF-7	breast:
13	chr2:100879047..100879970-chr2:100997375..100998193,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000115526	Chromatin interaction
ENSG00000270699	Chromatin interaction
ENSG00000170500	Chromatin interaction

Extended variants
information (count: 135 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10167159	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs10172841	0.93[GIH][hapmap]
rs10180570	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10184899	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10193535	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10198495	0.88[ASN][1000 genomes]
rs10198682	0.88[ASN][1000 genomes]
rs10200480	0.88[ASN][1000 genomes]
rs10201098	0.88[ASN][1000 genomes]
rs10204833	0.88[ASN][1000 genomes]
rs10206374	1.00[ASW][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10208900	0.88[ASN][1000 genomes]
rs10208911	0.88[ASN][1000 genomes]
rs10209186	0.88[ASN][1000 genomes]
rs1057056	1.00[ASW][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1057063	0.83[AMR][1000 genomes]
rs1057064	0.85[YRI][hapmap]
rs1107429	1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1124009	1.00[ASW][hapmap];1.00[GIH][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs13391930	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13396147	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13400841	0.96[GIH][hapmap];0.86[MEX][hapmap]
rs13404823	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13407408	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13407648	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13407891	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13410582	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13419808	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13420942	0.88[ASN][1000 genomes]
rs1347721	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1370627	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.88[ASN][1000 genomes]
rs1437970	0.88[ASN][1000 genomes]
rs1437972	0.93[GIH][hapmap];0.86[MEX][hapmap]
rs17023985	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17024035	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17024129	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17024133	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap]
rs17024136	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17024209	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs1898571	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1898574	0.88[ASN][1000 genomes]
rs2309793	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2309801	0.96[GIH][hapmap];0.86[MEX][hapmap]
rs3748936	1.00[ASW][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3791358	0.90[GIH][hapmap]
rs4149506	0.81[AMR][1000 genomes]
rs4149509	1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs4149514	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes]
rs4149515	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes]
rs4850932	0.96[GIH][hapmap]
rs55640826	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55843950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56051859	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56118658	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56342384	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56656536	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56741959	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs57862179	0.83[AMR][1000 genomes]
rs58164864	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs58876304	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60131548	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60609848	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60898093	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61321970	0.88[ASN][1000 genomes]
rs61710328	0.83[AMR][1000 genomes]
rs6542931	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6542932	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6542939	0.88[ASN][1000 genomes]
rs6542941	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6542946	0.93[GIH][hapmap]
rs6708942	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6713862	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6714109	0.88[ASN][1000 genomes]
rs6716009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6716367	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6724695	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6725672	1.00[ASW][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6728575	0.93[GIH][hapmap]
rs6732285	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6736938	0.81[AMR][1000 genomes]
rs6739576	0.88[ASN][1000 genomes]
rs6739589	0.90[AMR][1000 genomes]
rs6740098	0.88[ASN][1000 genomes]
rs6749572	0.81[AMR][1000 genomes]
rs6750866	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6754379	0.88[ASN][1000 genomes]
rs6754869	1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes]
rs6755285	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6755395	0.88[ASN][1000 genomes]
rs6757774	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6758156	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6758161	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6758515	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6758622	1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes]
rs6761561	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs72960172	0.88[ASN][1000 genomes]
rs72960184	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72960186	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72960202	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73966107	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73966108	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73968412	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73968415	0.82[ASN][1000 genomes]
rs73968817	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7556717	0.88[ASN][1000 genomes]
rs7557137	0.88[ASN][1000 genomes]
rs7559939	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7559946	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7561065	0.81[AMR][1000 genomes]
rs7562461	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7562479	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7562486	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7562615	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7564178	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7571659	0.93[GIH][hapmap]
rs7572119	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7574684	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7575422	1.00[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap]
rs7576749	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7582096	0.96[GIH][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes]
rs7582546	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7585713	0.96[GIH][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes]
rs7585898	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7587333	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7596483	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7597631	0.88[ASN][1000 genomes]
rs7597722	0.88[ASN][1000 genomes]
rs7598205	0.93[GIH][hapmap]
rs7606723	0.88[ASN][1000 genomes]
rs876439	0.93[GIH][hapmap]
rs9308834	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][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:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100993200-101017800	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr2:100996400-101007600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:100997000-100997800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr2:100997400-100997800	Enhancers	K562	blood
5	chr2:100997400-100998200	Enhancers	A549	lung
6	chr2:100997400-100998400	Enhancers	Primary B cells from peripheral blood	blood
7	chr2:100997600-100998200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr2:100997600-100998200	Enhancers	Dnd41	blood
9	chr2:100997600-100998200	Enhancers	GM12878-XiMat	blood

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