Variant report

Variant	rs7259968
Chromosome Location	chr19:37811854-37811855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:37811089..37813216-chr19:37824078..37826922,2	MCF-7	breast:
2	chr19:37807596..37810287-chr19:37811527..37815374,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000181666	Chromatin interaction

Extended variants
information (count: 109 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1015848	0.82[EUR][1000 genomes]
rs1015849	0.82[EUR][1000 genomes]
rs1035479	0.86[EUR][1000 genomes]
rs10403582	0.80[EUR][1000 genomes]
rs10403613	0.97[EUR][1000 genomes]
rs10404602	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10404920	0.91[EUR][1000 genomes]
rs10405064	0.95[EUR][1000 genomes]
rs10405325	0.87[EUR][1000 genomes]
rs10405407	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10406177	0.84[EUR][1000 genomes]
rs10407084	0.82[EUR][1000 genomes]
rs10409204	0.84[EUR][1000 genomes]
rs10412043	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10413602	0.85[EUR][1000 genomes]
rs10414904	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10415024	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10415358	0.98[EUR][1000 genomes]
rs10415937	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10417503	0.97[EUR][1000 genomes]
rs10417844	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10420430	0.85[EUR][1000 genomes]
rs10420754	0.82[EUR][1000 genomes]
rs10422074	0.85[EUR][1000 genomes]
rs10422423	0.97[EUR][1000 genomes]
rs10422667	0.82[EUR][1000 genomes]
rs10422967	0.97[EUR][1000 genomes]
rs10424574	0.96[EUR][1000 genomes]
rs10426297	0.94[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10426618	0.82[EUR][1000 genomes]
rs10426666	0.96[EUR][1000 genomes]
rs10426699	0.98[EUR][1000 genomes]
rs11671972	0.86[ASN][1000 genomes]
rs12104380	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12104381	0.95[EUR][1000 genomes]
rs12709812	0.89[EUR][1000 genomes]
rs12709813	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12972252	0.82[EUR][1000 genomes]
rs12979470	0.85[EUR][1000 genomes]
rs12981532	0.85[EUR][1000 genomes]
rs12982333	0.92[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs13343471	0.84[EUR][1000 genomes]
rs13343485	0.90[EUR][1000 genomes]
rs13343502	0.81[EUR][1000 genomes]
rs13345116	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13345148	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1373991	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1559229	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1823061	0.94[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs2081096	0.82[EUR][1000 genomes]
rs2112922	0.81[EUR][1000 genomes]
rs2112923	0.83[EUR][1000 genomes]
rs2303131	0.84[EUR][1000 genomes]
rs28402338	0.97[EUR][1000 genomes]
rs28538699	0.81[EUR][1000 genomes]
rs28623164	0.85[EUR][1000 genomes]
rs2891699	0.85[EUR][1000 genomes]
rs34544865	0.83[EUR][1000 genomes]
rs34603719	0.83[EUR][1000 genomes]
rs35085437	0.97[EUR][1000 genomes]
rs35777021	0.84[EUR][1000 genomes]
rs3745765	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3760825	0.83[EUR][1000 genomes]
rs3803895	0.86[EUR][1000 genomes]
rs4417644	0.97[EUR][1000 genomes]
rs4452075	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4801759	0.82[EUR][1000 genomes]
rs4801803	0.81[EUR][1000 genomes]
rs4803229	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4803347	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4803460	0.86[EUR][1000 genomes]
rs4803539	0.86[EUR][1000 genomes]
rs4969487	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57795776	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59224125	0.82[EUR][1000 genomes]
rs6508711	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6508713	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6508714	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6508715	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6508716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6508719	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67293224	0.89[EUR][1000 genomes]
rs713256	0.93[EUR][1000 genomes]
rs7246993	0.85[EUR][1000 genomes]
rs7247259	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7252099	0.84[EUR][1000 genomes]
rs7252325	0.85[EUR][1000 genomes]
rs7252346	0.85[EUR][1000 genomes]
rs7253091	0.82[EUR][1000 genomes]
rs7255407	0.85[EUR][1000 genomes]
rs7255972	0.84[EUR][1000 genomes]
rs7256130	0.82[EUR][1000 genomes]
rs7257495	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7257672	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7258692	0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7408133	0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7408446	0.94[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7408563	0.98[EUR][1000 genomes]
rs8106839	0.82[EUR][1000 genomes]
rs8109632	0.85[EUR][1000 genomes]
rs8111782	0.91[EUR][1000 genomes]
rs8112610	0.82[EUR][1000 genomes]
rs9304566	0.97[EUR][1000 genomes]
rs9676967	0.85[EUR][1000 genomes]
rs9917081	0.90[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	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv978811	chr19:37749967-37820517	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2757695	chr19:37794850-38051606	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	esv2758759	chr19:37794850-38051606	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37809200-37815800	Weak transcription	Gastric	stomach
2	chr19:37809200-37815800	Weak transcription	Spleen	Spleen
3	chr19:37809200-37818800	Weak transcription	Esophagus	oesophagus
4	chr19:37809200-37824800	Weak transcription	Stomach Mucosa	stomach
5	chr19:37809400-37814400	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr19:37809400-37814400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr19:37809400-37815800	Weak transcription	Aorta	Aorta
8	chr19:37809400-37825000	Weak transcription	Fetal Thymus	thymus
9	chr19:37809400-37825000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr19:37809600-37812000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr19:37809600-37812600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr19:37809600-37813200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr19:37809600-37813400	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr19:37809600-37815600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr19:37809600-37816000	Weak transcription	Psoas Muscle	Psoas
16	chr19:37809600-37819200	Weak transcription	Brain Substantia Nigra	brain
17	chr19:37809600-37819400	Weak transcription	Pancreas	Pancrea
18	chr19:37809600-37824400	Weak transcription	NHDF-Ad	bronchial
19	chr19:37809600-37825000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr19:37809800-37812000	Enhancers	Brain Anterior Caudate	brain
21	chr19:37809800-37812200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr19:37809800-37813600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr19:37809800-37813800	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr19:37809800-37813800	Weak transcription	Fetal Intestine Large	intestine
25	chr19:37809800-37814400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr19:37809800-37814600	Weak transcription	Placenta	Placenta
27	chr19:37809800-37815800	Weak transcription	Thymus	Thymus
28	chr19:37809800-37816600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr19:37809800-37818400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr19:37809800-37820000	Weak transcription	HMEC	breast
31	chr19:37810000-37813200	Weak transcription	Primary B cells from peripheral blood	blood
32	chr19:37810000-37814200	Weak transcription	Ovary	ovary
33	chr19:37810000-37814400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr19:37810000-37814400	Weak transcription	Osteobl	bone
35	chr19:37810000-37814600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr19:37810000-37814600	Weak transcription	HSMMtube	muscle
37	chr19:37810000-37818400	Weak transcription	HUVEC	blood vessel
38	chr19:37810000-37819000	Weak transcription	Fetal Brain Female	brain
39	chr19:37810000-37819400	Weak transcription	Brain Germinal Matrix	brain
40	chr19:37810000-37819400	Weak transcription	NHEK	skin
41	chr19:37810000-37820000	Weak transcription	NHLF	lung
42	chr19:37810000-37825000	Weak transcription	Hela-S3	cervix
43	chr19:37810200-37813200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr19:37810200-37813400	Weak transcription	Primary T cells from cord blood	blood
45	chr19:37810200-37813400	Weak transcription	Fetal Muscle Leg	muscle
46	chr19:37810200-37813800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr19:37810200-37814600	Weak transcription	Right Atrium	heart
48	chr19:37810200-37815800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr19:37810200-37821800	ZNF genes & repeats	A549	lung
50	chr19:37810400-37812600	Genic enhancers	Primary T cells fromperipheralblood	blood

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