Variant report

Variant	rs6729813
Chromosome Location	chr2:97362543-97362544
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:97360914..97363341-chr2:97377649..97380525,2	MCF-7	breast:
2	chr2:97361665..97367083-chr2:97369307..97373546,6	K562	blood:

Variant related genes	Relation type
ENSG00000114988	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1108786	1.00[EUR][1000 genomes]
rs11888876	1.00[EUR][1000 genomes]
rs11890388	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11902657	1.00[EUR][1000 genomes]
rs13386976	1.00[EUR][1000 genomes]
rs17119533	1.00[EUR][1000 genomes]
rs2312956	1.00[EUR][1000 genomes]
rs35069910	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3806559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4440007	1.00[EUR][1000 genomes]
rs56246244	1.00[EUR][1000 genomes]
rs57537489	1.00[EUR][1000 genomes]
rs57754441	1.00[EUR][1000 genomes]
rs58225390	1.00[EUR][1000 genomes]
rs6576982	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72939347	1.00[EUR][1000 genomes]
rs72939352	1.00[EUR][1000 genomes]
rs72939374	1.00[EUR][1000 genomes]
rs72939397	1.00[EUR][1000 genomes]
rs72941206	1.00[EUR][1000 genomes]
rs72941231	1.00[EUR][1000 genomes]
rs72942920	1.00[EUR][1000 genomes]
rs72942941	1.00[EUR][1000 genomes]
rs72942947	1.00[EUR][1000 genomes]
rs73959007	1.00[EUR][1000 genomes]
rs73959410	1.00[EUR][1000 genomes]
rs73959411	1.00[EUR][1000 genomes]
rs7575530	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7583821	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh 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	162 gene(s)	inside rSNPs	diseases
7	esv3460902	chr2:97138421-97459342	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
8	esv3460903	chr2:97138421-97459342	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers 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 target site	46 gene(s)	inside rSNPs	diseases
9	nsv999871	chr2:97157196-97407711	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv535829	chr2:97157196-97407711	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
11	nsv469775	chr2:97240926-97412491	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
12	nsv482586	chr2:97240926-97412491	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS 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 miRNA target site	23 gene(s)	inside rSNPs	diseases
13	nsv834306	chr2:97241115-97412938	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
14	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
15	nsv834307	chr2:97321447-97479266	Active TSS Strong transcription Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
16	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS 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 miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97346200-97368000	Weak transcription	Aorta	Aorta
2	chr2:97350400-97367600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:97351800-97368400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:97351800-97372800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:97351800-97373600	Weak transcription	Fetal Brain Male	brain
6	chr2:97352000-97363000	Weak transcription	Esophagus	oesophagus
7	chr2:97352000-97368000	Weak transcription	Ovary	ovary
8	chr2:97352000-97368200	Weak transcription	Gastric	stomach
9	chr2:97352200-97367800	Weak transcription	Right Ventricle	heart
10	chr2:97352400-97362800	Weak transcription	Fetal Intestine Large	intestine
11	chr2:97353800-97364400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr2:97353800-97371200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr2:97355800-97368400	Weak transcription	NHLF	lung
14	chr2:97356600-97365600	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr2:97356800-97368200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr2:97357600-97366800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr2:97358400-97375400	Weak transcription	Fetal Heart	heart
18	chr2:97358600-97367800	Weak transcription	Brain Anterior Caudate	brain
19	chr2:97358600-97369600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr2:97359200-97368000	Weak transcription	Thymus	Thymus
21	chr2:97359400-97365800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr2:97360000-97362800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr2:97360000-97363600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr2:97360200-97368200	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr2:97360200-97368600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr2:97360600-97367800	Weak transcription	Lung	lung
27	chr2:97360800-97367400	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr2:97360800-97375000	Strong transcription	Fetal Intestine Small	intestine
29	chr2:97360800-97381200	Strong transcription	Fetal Stomach	stomach
30	chr2:97361000-97367800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr2:97361000-97368200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr2:97361000-97370000	Weak transcription	Fetal Lung	lung
33	chr2:97361200-97362600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr2:97361200-97363200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr2:97361200-97363200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr2:97361200-97363400	Weak transcription	Placenta	Placenta
37	chr2:97361200-97364200	Weak transcription	Fetal Thymus	thymus
38	chr2:97361200-97364800	Strong transcription	Fetal Muscle Leg	muscle
39	chr2:97361200-97365000	Weak transcription	Fetal Muscle Trunk	muscle
40	chr2:97361200-97365800	Weak transcription	Brain Germinal Matrix	brain
41	chr2:97361200-97367400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr2:97361200-97367800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr2:97361200-97370400	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr2:97361200-97370600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr2:97361200-97371600	Weak transcription	Primary hematopoietic stem cells	blood
46	chr2:97361400-97367400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr2:97361400-97371800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr2:97361600-97365800	Weak transcription	Fetal Brain Female	brain
49	chr2:97361600-97367600	Weak transcription	HepG2	liver
50	chr2:97361800-97364600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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