Variant report

Variant	rs10780587
Chromosome Location	chr9:85912456-85912457
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	chr9:85910928..85912509-chr9:85920492..85923421,2	K562	blood:
2	chr9:85910411..85912906-chr9:85925285..85927422,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172159	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10117251	0.86[CEU][hapmap];0.89[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10118491	0.84[CEU][hapmap];0.80[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10867975	0.80[JPT][hapmap]
rs10867976	0.80[JPT][hapmap]
rs10867978	0.88[CEU][hapmap];0.84[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10867980	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10867981	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10867982	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10867983	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10867984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11140007	0.83[CEU][hapmap];0.84[JPT][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11140011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140013	0.95[CEU][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11140014	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11140015	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1323775	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1323776	0.84[CEU][hapmap];0.85[JPT][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1359167	0.92[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1359168	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1535750	0.88[CEU][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1535752	0.81[AMR][1000 genomes]
rs1535753	0.82[MEX][hapmap];0.81[AMR][1000 genomes]
rs1886125	0.84[CEU][hapmap];0.85[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1886126	0.83[CEU][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2209187	0.81[AMR][1000 genomes]
rs2209188	0.82[AMR][1000 genomes]
rs2378658	0.82[MEX][hapmap];0.81[AMR][1000 genomes]
rs2378659	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2889954	0.80[EUR][1000 genomes]
rs3739658	0.81[AMR][1000 genomes]
rs4877251	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4877751	0.82[MEX][hapmap]
rs4877752	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs942278	0.82[MEX][hapmap];0.80[AMR][1000 genomes]
rs942279	0.80[AMR][1000 genomes]
rs942280	0.82[MEX][hapmap];0.80[AMR][1000 genomes]
rs942282	0.81[AMR][1000 genomes]
rs942283	0.81[CHD][hapmap];0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv6586	chr9:85869828-85914812	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85866200-85913000	Weak transcription	Aorta	Aorta
2	chr9:85895000-85912800	Weak transcription	Fetal Brain Female	brain
3	chr9:85896000-85913600	Weak transcription	Psoas Muscle	Psoas
4	chr9:85896000-85919800	Weak transcription	Lung	lung
5	chr9:85896400-85912600	Weak transcription	Gastric	stomach
6	chr9:85896400-85913400	Weak transcription	Brain Germinal Matrix	brain
7	chr9:85896600-85913000	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr9:85896800-85922800	Weak transcription	Spleen	Spleen
9	chr9:85897000-85912600	Weak transcription	Adipose Nuclei	Adipose
10	chr9:85897000-85912600	Weak transcription	Ovary	ovary
11	chr9:85897000-85912800	Weak transcription	Right Ventricle	heart
12	chr9:85897200-85913000	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr9:85897200-85919200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr9:85897200-85922000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr9:85897400-85914800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr9:85905800-85919000	Weak transcription	Fetal Stomach	stomach
17	chr9:85906400-85915000	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr9:85906600-85919400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:85906800-85919600	Weak transcription	Pancreas	Pancrea
20	chr9:85908400-85913000	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr9:85908400-85913800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr9:85908800-85913000	Weak transcription	Fetal Muscle Leg	muscle
23	chr9:85909000-85914200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr9:85909000-85918400	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:85909200-85928000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr9:85910000-85913600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr9:85910400-85918000	Weak transcription	Fetal Brain Male	brain
28	chr9:85910600-85914000	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr9:85910800-85914000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr9:85911400-85913200	Weak transcription	Fetal Intestine Small	intestine
31	chr9:85911400-85918800	Weak transcription	Rectal Smooth Muscle	rectum
32	chr9:85911600-85912800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr9:85911600-85914000	Strong transcription	Left Ventricle	heart
34	chr9:85912000-85913600	Strong transcription	Skeletal Muscle Female	skeletal muscle
35	chr9:85912200-85915200	Enhancers	HUVEC	blood vessel
36	chr9:85912400-85913800	Strong transcription	HepG2	liver

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