Variant report

Variant	rs17725679
Chromosome Location	chr9:102006819-102006820
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101993443..101995149-chr9:102005787..102008217,2	K562	blood:
2	chr9:102000748..102002266-chr9:102004141..102006898,2	MCF-7	breast:
3	chr9:101982321..101984441-chr9:102005527..102007686,2	MCF-7	breast:
4	chr9:102003063..102004950-chr9:102006300..102007866,2	K562	blood:
5	chr9:101981695..101983638-chr9:102005792..102007302,2	MCF-7	breast:
6	chr9:101973322..101976282-chr9:102005565..102007917,2	K562	blood:

Variant related genes	Relation type
ENSG00000119523	Chromatin interaction
ENSG00000106803	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11545137	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11788822	0.89[ASN][1000 genomes]
rs12002203	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12003123	0.87[ASN][1000 genomes]
rs12005715	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16918376	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17725470	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17725597	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17725608	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17725644	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17725720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17787503	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17787533	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17787606	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28608552	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35626507	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs3780616	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs41274646	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs41274648	0.87[ASN][1000 genomes]
rs4265241	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4554535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55676416	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58644416	1.00[ASN][1000 genomes]
rs73653775	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857426	0.87[ASN][1000 genomes]
rs7863354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[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	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101987800-102007600	Weak transcription	Small Intestine	intestine
2	chr9:101991000-102015800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr9:101991200-102007400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:101991800-102007800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr9:101993400-102007400	Weak transcription	Fetal Lung	lung
6	chr9:101993600-102015800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr9:101993600-102018200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr9:101993800-102008000	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr9:101994200-102007000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr9:101994400-102007600	Weak transcription	Fetal Kidney	kidney
11	chr9:101994800-102016000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr9:101995600-102015400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:101995800-102007400	Weak transcription	Ovary	ovary
14	chr9:101995800-102015800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:101995800-102016000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:101996000-102016000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr9:101996600-102007800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:101996600-102008200	Weak transcription	Brain Germinal Matrix	brain
19	chr9:101997000-102016400	Weak transcription	Brain Hippocampus Middle	brain
20	chr9:101997400-102010200	Weak transcription	Psoas Muscle	Psoas
21	chr9:101999600-102007000	Weak transcription	Primary B cells from cord blood	blood
22	chr9:102000000-102007000	Weak transcription	Primary B cells from peripheral blood	blood
23	chr9:102001000-102008200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr9:102001800-102015600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr9:102001800-102015800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr9:102002200-102009200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:102002200-102015400	Weak transcription	Right Ventricle	heart
28	chr9:102002200-102016200	Weak transcription	Brain Angular Gyrus	brain
29	chr9:102002400-102021400	Weak transcription	Fetal Brain Female	brain
30	chr9:102002400-102021600	Weak transcription	Gastric	stomach
31	chr9:102002600-102016200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr9:102002800-102007600	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr9:102002800-102021400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:102003000-102007400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr9:102003000-102008600	Weak transcription	Fetal Muscle Leg	muscle
36	chr9:102003000-102009600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr9:102003000-102009600	Weak transcription	Adipose Nuclei	Adipose
38	chr9:102003000-102009800	Weak transcription	Lung	lung
39	chr9:102003000-102011800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr9:102003200-102007200	Weak transcription	Placenta	Placenta
41	chr9:102003200-102007400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr9:102003200-102008200	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr9:102003200-102009800	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr9:102003200-102015600	Weak transcription	Duodenum Mucosa	Duodenum
45	chr9:102003200-102018000	Weak transcription	Left Ventricle	heart
46	chr9:102004000-102009400	Weak transcription	HSMMtube	muscle
47	chr9:102004000-102011800	Weak transcription	Fetal Thymus	thymus
48	chr9:102004000-102012000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr9:102004000-102015800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr9:102004000-102016000	Weak transcription	Brain Inferior Temporal Lobe	brain

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