Variant report

Variant	rs4615669
Chromosome Location	chr9:21818674-21818675
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:21814236..21815756-chr9:21816687..21818774,2	MCF-7	breast:
2	chr9:21811237..21820561-chr9:21988636..21997115,18	MCF-7	breast:
3	chr9:21811828..21813353-chr9:21817709..21820249,2	MCF-7	breast:
4	chr9:21811532..21820564-chr9:21988281..21997291,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147889	Chromatin interaction
ENSG00000266446	Chromatin interaction
ENSG00000229298	Chromatin interaction
ENSG00000240498	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10114559	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10119568	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10119693	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10121449	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10121899	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10738598	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10738601	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10757257	0.83[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10811623	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10811625	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10811626	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10811629	1.00[CHB][hapmap];0.94[ASN][1000 genomes]
rs10965128	0.88[ASN][1000 genomes]
rs10965133	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10965134	1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10965135	1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.88[ASN][1000 genomes]
rs10965141	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10965143	1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10965144	0.95[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10965145	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10965153	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs11523031	0.92[ASN][1000 genomes]
rs11532907	0.85[ASN][1000 genomes]
rs1341866	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1345020	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1345023	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1345024	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1414243	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs2165409	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs3900787	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3922992	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4265275	0.82[EUR][1000 genomes]
rs4977567	0.91[ASN][1000 genomes]
rs4977733	0.94[ASN][1000 genomes]
rs58377678	0.90[ASN][1000 genomes]
rs7022754	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7023329	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7023954	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7029036	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7033879	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7038523	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7049092	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7863090	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7863942	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7868783	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21804000-21838200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:21806400-21819800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
3	chr9:21806600-21841200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:21809200-21836800	Weak transcription	Small Intestine	intestine
5	chr9:21814000-21831800	Weak transcription	Fetal Heart	heart
6	chr9:21814400-21831800	Weak transcription	Stomach Mucosa	stomach
7	chr9:21814400-21837400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr9:21814400-21845200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr9:21814600-21819200	Strong transcription	Dnd41	blood
10	chr9:21814800-21819600	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:21814800-21819800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:21814800-21820000	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr9:21814800-21820000	Strong transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:21814800-21820400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:21815000-21819200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr9:21815000-21819200	Strong transcription	NHEK	skin
17	chr9:21815000-21819400	ZNF genes & repeats	A549	lung
18	chr9:21815000-21819400	Strong transcription	NH-A	brain
19	chr9:21815000-21819600	Strong transcription	Primary B cells from peripheral blood	blood
20	chr9:21815000-21819800	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr9:21815200-21819600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:21815400-21819200	Strong transcription	Hela-S3	cervix
23	chr9:21815400-21819400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
24	chr9:21815400-21819400	Strong transcription	Duodenum Mucosa	Duodenum
25	chr9:21815600-21818800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:21815600-21819000	Strong transcription	Fetal Lung	lung
27	chr9:21815600-21819000	Strong transcription	HSMMtube	muscle
28	chr9:21815600-21819200	Strong transcription	Primary T cells from cord blood	blood
29	chr9:21815600-21819200	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr9:21815600-21819200	Strong transcription	HepG2	liver
31	chr9:21815600-21819400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr9:21815600-21819400	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr9:21815600-21819400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr9:21815600-21819400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr9:21815600-21819400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr9:21815600-21819400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr9:21815600-21819400	Strong transcription	Brain Inferior Temporal Lobe	brain
38	chr9:21815600-21819400	Strong transcription	Placenta	Placenta
39	chr9:21815600-21819400	Strong transcription	Fetal Stomach	stomach
40	chr9:21815600-21819600	Strong transcription	H9 Cell Line	embryonic stem cell
41	chr9:21815600-21819600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr9:21815600-21819600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr9:21815600-21819600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr9:21815600-21819600	Strong transcription	Adipose Nuclei	Adipose
45	chr9:21815600-21819600	Strong transcription	Brain Substantia Nigra	brain
46	chr9:21815600-21819600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr9:21815600-21819600	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:21815600-21819800	Strong transcription	Brain Anterior Caudate	brain
49	chr9:21815600-21819800	Strong transcription	Fetal Muscle Leg	muscle
50	chr9:21815600-21819800	Strong transcription	Ovary	ovary

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