Variant report

Variant	rs12684564
Chromosome Location	chr9:95778958-95778959
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95773730..95778717-chr9:95778943..95783002,4	K562	blood:
2	chr9:95770628..95772439-chr9:95778625..95781372,2	MCF-7	breast:
3	chr17:57918237..57920516-chr9:95778012..95780263,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000199004	Chromatin interaction
ENSG00000127084	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12682842	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12683998	0.80[AMR][1000 genomes]
rs12685906	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34654815	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3934851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4072566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41273408	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1054767	chr9:95738134-95875977	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1035230	chr9:95770249-95934982	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95761600-95785800	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:95761600-95785800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:95762000-95786400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr9:95762600-95790200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:95763600-95787200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr9:95763800-95789400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:95766400-95785600	Strong transcription	Primary B cells from peripheral blood	blood
8	chr9:95766600-95780200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr9:95766600-95783400	Weak transcription	Placenta	Placenta
10	chr9:95766600-95790400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr9:95766600-95790800	Weak transcription	Right Ventricle	heart
12	chr9:95766600-95791000	Weak transcription	Colonic Mucosa	Colon
13	chr9:95766600-95791000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr9:95766600-95794000	Weak transcription	Brain Hippocampus Middle	brain
15	chr9:95766800-95782400	Weak transcription	Liver	Liver
16	chr9:95766800-95786400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:95767000-95781800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr9:95767000-95787200	Strong transcription	Fetal Thymus	thymus
19	chr9:95767200-95781600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr9:95767400-95781800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr9:95767400-95782000	Strong transcription	Primary T cells from cord blood	blood
22	chr9:95769000-95781600	Weak transcription	Adipose Nuclei	Adipose
23	chr9:95770200-95780000	Weak transcription	Left Ventricle	heart
24	chr9:95770200-95793600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr9:95772600-95781200	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr9:95772600-95783000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr9:95773200-95779600	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr9:95773400-95780000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:95773400-95781600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
30	chr9:95773400-95781800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr9:95773400-95786600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr9:95773600-95783000	Weak transcription	Fetal Muscle Leg	muscle
33	chr9:95774200-95783800	Weak transcription	Fetal Brain Male	brain
34	chr9:95774800-95788400	Strong transcription	Thymus	Thymus
35	chr9:95775000-95786600	Strong transcription	Primary B cells from cord blood	blood
36	chr9:95776400-95783200	Weak transcription	Fetal Brain Female	brain
37	chr9:95776600-95780400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr9:95776600-95780400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
39	chr9:95776600-95780800	Weak transcription	Primary hematopoietic stem cells	blood
40	chr9:95776600-95781600	Weak transcription	Duodenum Mucosa	Duodenum
41	chr9:95776600-95781600	Weak transcription	Fetal Intestine Small	intestine
42	chr9:95776600-95781600	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr9:95776600-95799200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:95776600-95799400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:95776800-95779600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr9:95776800-95780200	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr9:95776800-95783200	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr9:95778000-95780400	Strong transcription	Pancreas	Pancrea
49	chr9:95778000-95781600	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr9:95778000-95782200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood

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