Variant report

Variant	rs2768291
Chromosome Location	chr9:108350181-108350182
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	chr9:108319265..108321879-chr9:108349827..108352014,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000228317	Chromatin interaction
ENSG00000106692	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10115299	0.81[EUR][1000 genomes]
rs10761100	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10816278	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10820809	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10820810	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10820812	0.94[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs10820813	0.96[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1327354	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1360089	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1806898	1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs1815383	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1960023	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1987634	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2225246	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2427769	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2518106	0.91[CEU][hapmap];0.93[EUR][1000 genomes]
rs2518112	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2518114	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2518116	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2518120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2518123	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2518124	1.00[ASN][1000 genomes]
rs2518128	0.92[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2518131	1.00[CEU][hapmap];0.90[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2768279	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2768280	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2768283	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2768290	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2768292	1.00[ASN][1000 genomes]
rs2768294	1.00[CEU][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2771038	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2771041	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2771042	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2812297	0.84[CHB][hapmap];0.89[JPT][hapmap]
rs2812303	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2812307	0.85[ASN][1000 genomes]
rs2812308	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2812310	0.94[CHB][hapmap];0.88[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4742650	0.86[AMR][1000 genomes]
rs4742947	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4742948	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6477447	0.83[EUR][1000 genomes]
rs6477449	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7020083	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7357632	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs7864020	0.82[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	nsv1049133	chr9:108292302-108356068	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108321600-108353600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr9:108321600-108354000	Weak transcription	Right Ventricle	heart
3	chr9:108321600-108360200	Weak transcription	HSMM	muscle
4	chr9:108321600-108397200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:108324800-108353800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:108325400-108357200	Weak transcription	A549	lung
7	chr9:108325600-108353200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:108325600-108353200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr9:108325600-108353800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:108325800-108353800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr9:108328000-108372800	Weak transcription	NHEK	skin
12	chr9:108330800-108366200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr9:108333200-108400400	Weak transcription	HMEC	breast
14	chr9:108333400-108352600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr9:108333400-108352600	Weak transcription	Fetal Kidney	kidney
16	chr9:108334200-108368200	Weak transcription	Gastric	stomach
17	chr9:108334800-108353000	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr9:108335000-108352200	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:108335000-108352600	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr9:108335000-108352600	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:108335000-108353000	Weak transcription	Aorta	Aorta
22	chr9:108335200-108351000	Weak transcription	Primary B cells from cord blood	blood
23	chr9:108335200-108352600	Weak transcription	Primary B cells from peripheral blood	blood
24	chr9:108335200-108353000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr9:108335400-108403400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr9:108335600-108352400	Weak transcription	Left Ventricle	heart
27	chr9:108335800-108352000	Weak transcription	Brain Germinal Matrix	brain
28	chr9:108336000-108353200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr9:108336000-108366200	Weak transcription	NHDF-Ad	bronchial
30	chr9:108336400-108353800	Weak transcription	Brain Angular Gyrus	brain
31	chr9:108337600-108353800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr9:108337800-108354800	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr9:108338200-108351400	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr9:108338400-108350600	Weak transcription	Dnd41	blood
35	chr9:108338400-108350800	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr9:108338400-108351000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr9:108338400-108351000	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr9:108338400-108351000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:108338400-108351600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr9:108338400-108351800	Weak transcription	Primary T helper cells fromperipheralblood	blood
41	chr9:108338400-108352000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:108338400-108352000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr9:108338400-108352000	Weak transcription	Fetal Lung	lung
44	chr9:108338400-108352000	Weak transcription	Fetal Muscle Trunk	muscle
45	chr9:108338400-108352200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr9:108338400-108352200	Weak transcription	Liver	Liver
47	chr9:108338400-108352400	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr9:108338400-108352400	Weak transcription	Ovary	ovary
49	chr9:108338400-108352600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr9:108338400-108352800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links