Variant report

Variant	rs6479577
Chromosome Location	chr9:97625312-97625313
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97624375..97626287-chr9:97627314..97629648,2	K562	blood:
2	chr20:52518559..52520827-chr9:97624816..97626567,2	MCF-7	breast:
3	chr9:97624362..97626626-chr9:97681744..97683670,3	MCF-7	breast:
4	chr9:97622455..97625860-chr9:97683870..97686784,3	MCF-7	breast:
5	chr9:97624375..97626132-chr9:97681211..97683615,2	MCF-7	breast:
6	chr9:97621507..97626749-chr9:97626893..97633201,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10122127	0.94[AFR][1000 genomes]
rs10732405	0.90[AFR][1000 genomes]
rs10733756	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10739986	0.91[AFR][1000 genomes]
rs10739988	1.00[ASN][1000 genomes]
rs10761360	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821405	0.87[AFR][1000 genomes]
rs10821407	0.88[AMR][1000 genomes]
rs10993348	0.83[AFR][1000 genomes]
rs12553916	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1530331	0.88[AMR][1000 genomes]
rs17355875	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs181488	0.83[AFR][1000 genomes]
rs191654	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2099868	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2165715	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2304884	0.90[AFR][1000 genomes]
rs2406899	0.92[AFR][1000 genomes]
rs242260	0.85[AMR][1000 genomes]
rs2584804	0.87[AFR][1000 genomes]
rs2584805	0.92[EUR][1000 genomes]
rs2675168	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs356125	0.92[EUR][1000 genomes]
rs356128	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356132	0.92[EUR][1000 genomes]
rs356133	0.92[EUR][1000 genomes]
rs356135	0.83[AFR][1000 genomes]
rs356136	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356139	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356142	0.83[AFR][1000 genomes]
rs356145	0.92[EUR][1000 genomes]
rs356147	0.92[EUR][1000 genomes]
rs356148	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356149	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs365465	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs367319	0.92[EUR][1000 genomes]
rs376902	0.83[AFR][1000 genomes]
rs384039	0.83[AFR][1000 genomes]
rs3887267	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs397783	0.82[AMR][1000 genomes]
rs397806	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs415016	0.90[AFR][1000 genomes]
rs422502	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs438742	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs448899	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs456276	0.92[EUR][1000 genomes]
rs457795	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4612413	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4743968	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743970	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744380	0.94[AFR][1000 genomes]
rs4744382	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744383	0.89[AFR][1000 genomes]
rs4744387	0.88[AMR][1000 genomes]
rs4744388	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs555799	0.89[EUR][1000 genomes]
rs56198429	0.86[EUR][1000 genomes]
rs562605	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56317174	0.86[EUR][1000 genomes]
rs58281499	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60120	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479569	0.92[EUR][1000 genomes]
rs6479570	0.88[AFR][1000 genomes]
rs6479571	0.88[AFR][1000 genomes]
rs6479572	0.90[AFR][1000 genomes]
rs6479574	0.90[AFR][1000 genomes]
rs6479575	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479576	0.88[AMR][1000 genomes]
rs6479578	1.00[ASN][1000 genomes]
rs66495734	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs66710673	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs67208365	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs68090960	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs68091393	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7025934	0.85[AMR][1000 genomes]
rs7026714	0.88[AMR][1000 genomes]
rs7031172	0.82[AFR][1000 genomes]
rs7035166	0.88[AMR][1000 genomes]
rs7038519	0.88[AMR][1000 genomes]
rs7038891	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7044371	1.00[ASN][1000 genomes]
rs7045387	0.94[AFR][1000 genomes]
rs7047478	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72747019	0.86[EUR][1000 genomes]
rs7341710	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7855781	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7864389	0.85[AMR][1000 genomes]
rs7870679	0.88[AMR][1000 genomes]
rs894428	0.88[AMR][1000 genomes]
rs9409589	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9409805	0.82[AMR][1000 genomes];0.92[EUR][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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97605800-97626000	Weak transcription	Right Atrium	heart
2	chr9:97610200-97625800	Weak transcription	Right Ventricle	heart
3	chr9:97612000-97627600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr9:97612800-97626200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr9:97614000-97627800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:97616600-97629600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:97617000-97627600	Weak transcription	Adipose Nuclei	Adipose
8	chr9:97618600-97628400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr9:97620600-97627800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr9:97621800-97626200	Weak transcription	Fetal Heart	heart
11	chr9:97622600-97628200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr9:97622600-97628600	Enhancers	Primary hematopoietic stem cells	blood
13	chr9:97622800-97625400	Enhancers	NHDF-Ad	bronchial
14	chr9:97623200-97625400	Enhancers	Spleen	Spleen
15	chr9:97623400-97625400	Enhancers	Hela-S3	cervix
16	chr9:97623600-97627200	Weak transcription	Aorta	Aorta
17	chr9:97623800-97629600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr9:97624000-97625400	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr9:97624000-97625400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
20	chr9:97624000-97625400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr9:97624000-97626000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:97624200-97626000	Weak transcription	Gastric	stomach
23	chr9:97624200-97626200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr9:97624200-97627200	Weak transcription	Brain Angular Gyrus	brain
25	chr9:97624200-97627200	Enhancers	A549	lung
26	chr9:97624200-97627600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr9:97624200-97629400	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr9:97624200-97632800	Weak transcription	Thymus	Thymus
29	chr9:97624400-97625600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr9:97624400-97626000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr9:97624400-97627200	Weak transcription	Fetal Kidney	kidney
32	chr9:97624600-97625600	Enhancers	Dnd41	blood
33	chr9:97624600-97626000	Weak transcription	Brain Substantia Nigra	brain
34	chr9:97624600-97626200	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr9:97624600-97626200	Weak transcription	Small Intestine	intestine
36	chr9:97624600-97627800	Enhancers	Primary hematopoietic stem cells short term culture	blood
37	chr9:97624600-97628200	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr9:97624600-97628200	Weak transcription	HepG2	liver
39	chr9:97624600-97629200	Weak transcription	HMEC	breast
40	chr9:97624600-97629400	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr9:97624600-97629600	Weak transcription	Primary monocytes fromperipheralblood	blood
42	chr9:97624600-97629600	Weak transcription	Esophagus	oesophagus
43	chr9:97624600-97629800	Weak transcription	Colonic Mucosa	Colon
44	chr9:97624800-97626000	Weak transcription	Fetal Lung	lung
45	chr9:97624800-97626000	Weak transcription	Fetal Stomach	stomach
46	chr9:97624800-97626200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr9:97624800-97626200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr9:97624800-97626600	Weak transcription	Brain Anterior Caudate	brain
49	chr9:97624800-97626800	Weak transcription	NH-A	brain
50	chr9:97624800-97627200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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