Variant report

Variant	rs902795
Chromosome Location	chr3:119865700-119865701
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:119811328..119819569-chr3:119859303..119870611,43	MCF-7	breast:
2	chr3:119865007..119867802-chr3:119897494..119899931,3	MCF-7	breast:
3	chr3:119865137..119868181-chr3:119877404..119880372,3	MCF-7	breast:
4	chr3:119847797..119849644-chr3:119865497..119868433,2	MCF-7	breast:
5	chr3:119610347..119611160-chr3:119865685..119866515,3	MCF-7	breast:
6	chr3:119862753..119866394-chr3:119887362..119889316,3	MCF-7	breast:
7	chr3:119829682..119832031-chr3:119864501..119867434,2	MCF-7	breast:
8	chr3:119809272..119819238-chr3:119861129..119869186,35	MCF-7	breast:
9	chr3:119864581..119866968-chr3:119914610..119916835,2	MCF-7	breast:
10	chr3:119864838..119867291-chr3:119874320..119877276,3	MCF-7	breast:
11	chr3:119864495..119866427-chr3:119878369..119880021,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000082701	Chromatin interaction
ENSG00000242622	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10049256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10934512	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10934514	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10934515	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10934516	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10934517	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1154596	0.88[CEU][hapmap]
rs1154597	0.87[CEU][hapmap]
rs11707711	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12152218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13312998	0.87[CEU][hapmap]
rs1352458	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1488761	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1488762	0.93[EUR][1000 genomes]
rs1488764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1492271	0.87[CEU][hapmap];1.00[JPT][hapmap]
rs16830683	0.87[CEU][hapmap]
rs182839	0.87[CEU][hapmap]
rs1907681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2007756	0.82[EUR][1000 genomes]
rs2035671	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2035672	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2035673	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2035674	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2046954	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2130000	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2130001	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2131174	0.85[EUR][1000 genomes]
rs2171598	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2171599	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2319541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2319542	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2319543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs28398784	0.93[EUR][1000 genomes]
rs2874022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs2874023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2971211	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs3112282	0.89[EUR][1000 genomes]
rs3112283	0.89[EUR][1000 genomes]
rs334534	0.87[CEU][hapmap]
rs334539	1.00[CEU][hapmap]
rs334545	1.00[CEU][hapmap]
rs334549	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs334561	0.88[CEU][hapmap]
rs4488869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4676767	0.82[YRI][hapmap]
rs4676804	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4676809	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4676822	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4676832	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6438554	0.88[CEU][hapmap]
rs6438558	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6438559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438561	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6438562	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6438564	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6438566	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438567	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6764549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6769988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6774210	1.00[JPT][hapmap]
rs6775625	0.86[EUR][1000 genomes]
rs6776122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6777971	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6781470	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs6782570	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6784239	0.88[CEU][hapmap]
rs6785050	0.87[CEU][hapmap]
rs6794478	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6797689	0.87[CEU][hapmap]
rs6803611	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6805050	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7637828	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7641838	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7642171	0.86[CEU][hapmap];0.85[CHB][hapmap];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7644268	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs7650554	0.87[CEU][hapmap]
rs7653263	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7653396	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs787198	1.00[JPT][hapmap]
rs787211	0.88[CEU][hapmap]
rs901920	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs902790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs902791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs902792	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs902794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs902796	0.82[YRI][hapmap]
rs923380	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs923726	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs923727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs923728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9289142	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9289143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs979682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9813834	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9841122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9841303	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9842302	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9849023	0.88[EUR][1000 genomes]
rs9853082	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9857123	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9858566	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9868058	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9868312	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9881717	0.86[AMR][1000 genomes];0.82[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	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
3	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv829697	chr3:119802856-119918435	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases
5	nsv877376	chr3:119824037-120119446	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv3967	chr3:119857708-119903115	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119861200-119866000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:119862000-119867800	Enhancers	Placenta	Placenta
3	chr3:119862200-119866400	Enhancers	HepG2	liver
4	chr3:119862600-119868000	Enhancers	HMEC	breast
5	chr3:119863000-119867200	Enhancers	Placenta Amnion	Placenta Amnion
6	chr3:119863000-119867800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:119863400-119867600	Enhancers	Fetal Intestine Small	intestine
8	chr3:119863600-119865800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:119863600-119866000	Weak transcription	Adipose Nuclei	Adipose
10	chr3:119863600-119866000	Weak transcription	Fetal Lung	lung
11	chr3:119863600-119866000	Weak transcription	Left Ventricle	heart
12	chr3:119863600-119866000	Weak transcription	Lung	lung
13	chr3:119863600-119866200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:119863800-119866200	Weak transcription	Fetal Heart	heart
15	chr3:119864200-119868000	Enhancers	Fetal Intestine Large	intestine
16	chr3:119864400-119866200	Enhancers	Esophagus	oesophagus
17	chr3:119864600-119866200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:119864600-119866400	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:119864600-119871800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:119864800-119866000	Weak transcription	HUVEC	blood vessel
21	chr3:119864800-119866400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr3:119864800-119866400	Weak transcription	Stomach Mucosa	stomach
23	chr3:119864800-119866800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:119864800-119871600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr3:119865000-119866000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr3:119865000-119866000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr3:119865000-119866000	Weak transcription	Right Atrium	heart
28	chr3:119865000-119866000	Weak transcription	A549	lung
29	chr3:119865000-119866200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr3:119865000-119866200	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr3:119865000-119866200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr3:119865000-119866400	Weak transcription	HSMMtube	muscle
33	chr3:119865000-119870800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr3:119865000-119870800	Weak transcription	Osteobl	bone
35	chr3:119865200-119866000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:119865200-119866200	Weak transcription	NHDF-Ad	bronchial
37	chr3:119865200-119866400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr3:119865200-119867800	Enhancers	Hela-S3	cervix
39	chr3:119865200-119870200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr3:119865400-119865800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr3:119865600-119866400	Enhancers	Primary T helper naive cells from peripheral blood	blood
42	chr3:119865600-119866400	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr3:119865600-119866800	Enhancers	Primary T cells fromperipheralblood	blood
44	chr3:119865600-119867200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr3:119865600-119867200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr3:119865600-119867200	Flanking Active TSS	NHEK	skin
47	chr3:119865600-119868400	Enhancers	Primary T cells from cord blood	blood
48	chr3:119865600-119868400	Enhancers	Fetal Thymus	thymus
49	chr3:119865600-119868600	Enhancers	Thymus	Thymus
50	chr3:119865600-119868600	Enhancers	Dnd41	blood

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