Variant report

Variant	rs6535822
Chromosome Location	chr4:152679722-152679723
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	chr4:152675736..152679885-chr4:152680808..152682883,3	MCF-7	breast:
2	chr4:152675205..152679978-chr4:152680175..152683164,9	K562	blood:

Variant related genes	Relation type
ENSG00000059691	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10001603	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10013612	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10016160	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222838	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10222925	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11099828	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11099829	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11723227	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12502446	0.90[ASN][1000 genomes]
rs12503677	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12506000	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12641433	1.00[CEU][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12641438	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12641441	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12645029	0.81[CEU][hapmap]
rs12647420	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12647462	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12647465	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12647616	0.86[EUR][1000 genomes]
rs13108359	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13119490	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13121190	0.83[EUR][1000 genomes]
rs13139327	0.84[EUR][1000 genomes]
rs13147021	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1366907	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1397683	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1429558	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1429559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1822347	0.81[CEU][hapmap]
rs1877185	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877186	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1877188	0.92[CEU][hapmap];0.83[JPT][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2089811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2175409	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2303866	0.94[JPT][hapmap]
rs2406973	1.00[CEU][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2406974	0.82[EUR][1000 genomes]
rs28659854	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3805356	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3811794	0.90[AFR][1000 genomes]
rs3828546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4399967	0.84[EUR][1000 genomes]
rs4554052	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4643789	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4696098	0.81[CEU][hapmap]
rs4696106	0.84[EUR][1000 genomes]
rs4696107	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4696108	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4696110	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4696286	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4696287	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4696290	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4696295	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4696296	0.81[ASN][1000 genomes]
rs4696297	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58751443	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59350867	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61308159	0.84[EUR][1000 genomes]
rs6535816	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6816002	0.82[EUR][1000 genomes]
rs6816471	0.81[CEU][hapmap]
rs6847844	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6849111	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6855883	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6857073	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7654294	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7669465	1.00[CEU][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7669761	1.00[CEU][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7674244	0.81[CEU][hapmap]
rs7675818	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7683134	0.81[CEU][hapmap]
rs7695866	0.81[CEU][hapmap]
rs867800	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs875667	0.81[CEU][hapmap]
rs9996320	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432644	chr4:152635395-153023402	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152629200-152681400	Weak transcription	Colonic Mucosa	Colon
2	chr4:152629400-152681200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr4:152651800-152681400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr4:152658600-152681200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr4:152659000-152681400	Weak transcription	Pancreas	Pancrea
6	chr4:152659400-152681400	Weak transcription	Thymus	Thymus
7	chr4:152659600-152681200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr4:152659800-152681400	Weak transcription	Spleen	Spleen
9	chr4:152660800-152681000	Weak transcription	Fetal Lung	lung
10	chr4:152662600-152681400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr4:152665400-152681400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr4:152666200-152681200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr4:152666400-152681000	Weak transcription	HUVEC	blood vessel
14	chr4:152666400-152681200	Weak transcription	Hela-S3	cervix
15	chr4:152666600-152681200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr4:152666800-152681200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr4:152667000-152681200	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:152667200-152681000	Weak transcription	GM12878-XiMat	blood
19	chr4:152667400-152681000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr4:152667400-152681000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr4:152667400-152681200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr4:152667400-152681200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr4:152667400-152681200	Weak transcription	Brain Angular Gyrus	brain
24	chr4:152667400-152681200	Weak transcription	HSMMtube	muscle
25	chr4:152667400-152681200	Weak transcription	NHDF-Ad	bronchial
26	chr4:152667600-152681200	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr4:152667800-152681200	Weak transcription	Rectal Smooth Muscle	rectum
28	chr4:152668000-152681200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr4:152668000-152681200	Weak transcription	Fetal Brain Female	brain
30	chr4:152668000-152681400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr4:152668000-152681400	Weak transcription	Fetal Brain Male	brain
32	chr4:152668400-152681200	Weak transcription	Fetal Heart	heart
33	chr4:152668600-152681200	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr4:152668600-152681200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr4:152668600-152681200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr4:152668600-152681200	Weak transcription	K562	blood
37	chr4:152668600-152681200	Weak transcription	NHLF	lung
38	chr4:152668600-152681400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr4:152668600-152681400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr4:152668600-152681800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr4:152670000-152681200	Weak transcription	Brain Germinal Matrix	brain
42	chr4:152670800-152680000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr4:152671200-152679800	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr4:152671200-152679800	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr4:152671400-152680000	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr4:152671600-152681200	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr4:152671600-152681400	Weak transcription	Fetal Intestine Small	intestine
48	chr4:152672400-152681200	Weak transcription	Psoas Muscle	Psoas
49	chr4:152673000-152680000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr4:152673800-152680000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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