Variant report

Variant	rs6479589
Chromosome Location	chr9:97775979-97775980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97769222..97771704-chr9:97773500..97776242,3	K562	blood:
2	chr9:97766934..97769900-chr9:97774510..97776079,2	K562	blood:
3	chr9:97772446..97776004-chr9:97866953..97870204,3	MCF-7	breast:
4	chr9:97687301..97689149-chr9:97775376..97777317,2	MCF-7	breast:
5	chr9:97564695..97567248-chr9:97774621..97777227,2	MCF-7	breast:
6	chr9:97671639..97694679-chr9:97760418..97786060,142	MCF-7	breast:
7	chr9:97773644..97776105-chr9:97889284..97892061,2	MCF-7	breast:
8	chr9:97774294..97776969-chr9:97847826..97850340,2	MCF-7	breast:
9	chr9:97773624..97778392-chr9:97779399..97783599,7	K562	blood:
10	chr9:97542800..97546553-chr9:97773474..97777107,5	MCF-7	breast:
11	chr9:97684545..97686824-chr9:97775736..97778067,2	MCF-7	breast:
12	chr9:97770812..97773643-chr9:97773924..97776829,2	K562	blood:
13	chr9:97731129..97733511-chr9:97775894..97777894,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction
ENSG00000158169	Chromatin interaction
ENSG00000207617	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1020962	1.00[AMR][1000 genomes]
rs1038092	1.00[MEX][hapmap];0.90[AMR][1000 genomes]
rs10739991	1.00[CEU][hapmap]
rs10761371	0.83[AMR][1000 genomes]
rs10993471	1.00[MEX][hapmap];0.83[AMR][1000 genomes]
rs1113967	1.00[CEU][hapmap]
rs12555829	0.90[AMR][1000 genomes]
rs1542107	1.00[CEU][hapmap]
rs1564235	0.81[AMR][1000 genomes]
rs1571896	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1571897	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1871220	0.81[AMR][1000 genomes]
rs1888944	0.82[MEX][hapmap]
rs2061798	0.88[AMR][1000 genomes]
rs2061799	0.82[MEX][hapmap];0.82[AMR][1000 genomes]
rs2061801	0.90[AMR][1000 genomes]
rs2119953	1.00[CEU][hapmap]
rs2306207	1.00[MEX][hapmap]
rs2406898	1.00[CEU][hapmap]
rs2897523	1.00[CEU][hapmap]
rs3739748	1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3886568	1.00[CEU][hapmap]
rs4743975	0.81[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743976	0.81[ASW][hapmap];1.00[CEU][hapmap];0.87[LWK][hapmap];0.82[MEX][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4743977	0.90[AMR][1000 genomes]
rs4743978	0.81[AMR][1000 genomes]
rs4744389	1.00[CEU][hapmap]
rs4744421	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4744437	0.81[AMR][1000 genomes]
rs67134693	0.90[AMR][1000 genomes]
rs7022739	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7023719	0.82[MEX][hapmap]
rs73540087	0.90[AMR][1000 genomes]
rs7869736	1.00[CEU][hapmap]
rs894427	1.00[CEU][hapmap]

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:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97768000-97776400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:97768000-97781000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:97768000-97781000	Weak transcription	Gastric	stomach
4	chr9:97768000-97783800	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr9:97768000-97786200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:97768200-97779400	Weak transcription	Fetal Brain Female	brain
7	chr9:97768200-97779800	Weak transcription	K562	blood
8	chr9:97768800-97781800	Weak transcription	Primary hematopoietic stem cells	blood
9	chr9:97768800-97785600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:97769000-97779400	Weak transcription	GM12878-XiMat	blood
11	chr9:97769000-97783800	Weak transcription	Fetal Brain Male	brain
12	chr9:97769000-97787600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:97769600-97784200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr9:97769600-97790200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr9:97770000-97781200	Weak transcription	Small Intestine	intestine
16	chr9:97770600-97780800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr9:97770800-97777400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr9:97770800-97781600	Weak transcription	Colonic Mucosa	Colon
19	chr9:97770800-97782000	Weak transcription	Fetal Muscle Trunk	muscle
20	chr9:97770800-97782200	Weak transcription	Lung	lung
21	chr9:97770800-97810000	Weak transcription	Primary T cells from cord blood	blood
22	chr9:97771000-97777000	Weak transcription	Duodenum Mucosa	Duodenum
23	chr9:97771000-97778200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:97771000-97780800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:97771000-97781600	Weak transcription	Primary B cells from cord blood	blood
26	chr9:97771200-97776000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr9:97771200-97777400	Genic enhancers	NHDF-Ad	bronchial
28	chr9:97771200-97777600	Weak transcription	Fetal Kidney	kidney
29	chr9:97772000-97777200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr9:97772000-97782200	Weak transcription	Esophagus	oesophagus
31	chr9:97772800-97780800	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr9:97772800-97780800	Weak transcription	Right Atrium	heart
33	chr9:97773000-97776200	Weak transcription	Fetal Lung	lung
34	chr9:97773000-97776400	Weak transcription	Right Ventricle	heart
35	chr9:97773000-97782200	Weak transcription	Spleen	Spleen
36	chr9:97773200-97776000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr9:97773200-97776000	Weak transcription	Placenta	Placenta
38	chr9:97773200-97776400	Weak transcription	Stomach Mucosa	stomach
39	chr9:97773200-97778800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr9:97773200-97779400	Weak transcription	HMEC	breast
41	chr9:97773200-97793200	Weak transcription	Brain Germinal Matrix	brain
42	chr9:97773400-97776000	Weak transcription	NH-A	brain
43	chr9:97773400-97777200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr9:97773400-97778800	Weak transcription	HUVEC	blood vessel
45	chr9:97774000-97776400	Weak transcription	Fetal Stomach	stomach
46	chr9:97774000-97776400	Weak transcription	Left Ventricle	heart
47	chr9:97774000-97776600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr9:97774000-97776600	Weak transcription	Pancreas	Pancrea
49	chr9:97774000-97776600	Weak transcription	Psoas Muscle	Psoas
50	chr9:97774000-97778600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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