Variant report

Variant	rs2249830
Chromosome Location	chr18:12718815-12718816
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:12701994..12704522-chr18:12715862..12719456,3	MCF-7	breast:
2	chr18:12700032..12705298-chr18:12715914..12720510,6	K562	blood:
3	chr18:12702684..12705298-chr18:12717153..12719549,3	K562	blood:

Variant related genes	Relation type
ENSG00000101624	Chromatin interaction
ENSG00000128789	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11080593	0.80[ASN][1000 genomes]
rs11663219	0.89[ASN][1000 genomes]
rs11663226	0.88[ASN][1000 genomes]
rs11663260	0.89[ASN][1000 genomes]
rs1539813	0.94[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.95[ASN][1000 genomes]
rs16939680	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1833326	0.95[ASN][1000 genomes]
rs1893212	0.93[CHB][hapmap];0.93[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1893213	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs1893214	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2015197	0.98[ASN][1000 genomes]
rs2542172	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2542174	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2542175	0.81[ASN][1000 genomes]
rs2542176	0.89[ASN][1000 genomes]
rs2542177	0.80[ASN][1000 genomes]
rs2847254	0.89[ASN][1000 genomes]
rs2847272	0.98[ASN][1000 genomes]
rs2847305	0.95[ASN][1000 genomes]
rs4796966	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4797698	0.91[ASN][1000 genomes]
rs4797701	0.97[ASN][1000 genomes]
rs479860	0.93[CHB][hapmap]
rs507868	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs514831	0.93[CHB][hapmap]
rs56063272	0.81[ASN][1000 genomes]
rs56328751	0.81[ASN][1000 genomes]
rs575093	0.93[CHB][hapmap]
rs58135011	0.82[ASN][1000 genomes]
rs60876158	0.80[ASN][1000 genomes]
rs61542301	0.82[ASN][1000 genomes]
rs62095972	0.93[ASN][1000 genomes]
rs62097130	0.80[ASN][1000 genomes]
rs62097145	0.81[ASN][1000 genomes]
rs8086774	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs8089003	0.93[ASN][1000 genomes]
rs9635805	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063125	chr18:12046892-12918251	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Genic enhancers 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	130 gene(s)	inside rSNPs	diseases
2	nsv491873	chr18:12159445-12739784	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
3	esv3528039	chr18:12396582-12851293	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	esv3528041	chr18:12396641-12851245	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv523743	chr18:12474505-12742809	Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	esv1820040	chr18:12635601-12725236	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	esv1817845	chr18:12635601-12733705	Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	esv1821625	chr18:12635601-12733705	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
10	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
11	nsv1064273	chr18:12697601-12828251	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:12704200-12726800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr18:12704800-12727200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr18:12704800-12727800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr18:12705000-12722400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr18:12705000-12725200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr18:12705000-12728600	Weak transcription	Stomach Mucosa	stomach
7	chr18:12705400-12726000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr18:12705400-12727200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr18:12705600-12726000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr18:12705600-12727000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr18:12705600-12727200	Strong transcription	Primary monocytes fromperipheralblood	blood
12	chr18:12705600-12727200	Strong transcription	Duodenum Mucosa	Duodenum
13	chr18:12705600-12727200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr18:12705800-12726600	Strong transcription	Fetal Thymus	thymus
15	chr18:12705800-12727000	Strong transcription	Placenta	Placenta
16	chr18:12705800-12727200	Strong transcription	Primary T cells fromperipheralblood	blood
17	chr18:12705800-12727200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr18:12705800-12727200	Strong transcription	Fetal Muscle Leg	muscle
19	chr18:12706000-12727000	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr18:12706000-12727200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr18:12706200-12726000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr18:12706200-12726800	Strong transcription	Fetal Intestine Large	intestine
23	chr18:12706200-12727200	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr18:12706200-12727200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr18:12706400-12726600	Strong transcription	Liver	Liver
26	chr18:12706400-12727000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr18:12706400-12727000	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr18:12706400-12727200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr18:12706600-12719200	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr18:12706600-12727200	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr18:12706600-12727200	Strong transcription	Adipose Nuclei	Adipose
32	chr18:12706800-12723600	Strong transcription	Fetal Intestine Small	intestine
33	chr18:12706800-12727000	Strong transcription	Dnd41	blood
34	chr18:12707200-12725000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr18:12707600-12723000	Strong transcription	Fetal Stomach	stomach
36	chr18:12708000-12723400	Weak transcription	Fetal Heart	heart
37	chr18:12708200-12722200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr18:12708600-12726800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr18:12709200-12725600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr18:12709200-12726200	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr18:12709200-12726800	Strong transcription	Osteobl	bone
42	chr18:12709600-12725800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr18:12709600-12726400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr18:12709800-12724600	Strong transcription	Fetal Brain Female	brain
45	chr18:12710200-12719000	Strong transcription	NH-A	brain
46	chr18:12710200-12727000	Strong transcription	Stomach Smooth Muscle	stomach
47	chr18:12710200-12727200	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr18:12710200-12727200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr18:12710600-12724200	Strong transcription	Brain Germinal Matrix	brain
50	chr18:12711000-12721000	Strong transcription	Primary B cells from cord blood	blood

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