Variant report

Variant	rs10991854
Chromosome Location	chr9:94023894-94023895
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:94022525..94024830-chr9:94026758..94029257,2	MCF-7	breast:
2	chr7:150064321..150066775-chr9:94023068..94024630,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196456	Chromatin interaction
ENSG00000214022	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1022141	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10512209	1.00[AFR][1000 genomes]
rs10991842	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991846	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991852	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991856	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991867	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10991868	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991871	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991874	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10991876	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10991879	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991883	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991884	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991885	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10991886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991887	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991892	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10991893	0.82[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10991894	0.87[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs10991895	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10991896	0.85[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991897	0.82[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991901	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991903	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991906	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12238387	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907250	1.00[AFR][1000 genomes]
rs16907269	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16907273	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16907280	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16907293	1.00[AFR][1000 genomes]
rs16907311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16907384	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2281922	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2292365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3811122	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3811124	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3851540	1.00[AFR][1000 genomes]
rs4430195	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4537426	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868771	1.00[CEU][hapmap]

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	nsv893570	chr9:93973938-94148084	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv482877	chr9:93979351-94157734	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv523129	chr9:94023575-94025991	Enhancers Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93982800-94032400	Weak transcription	Ovary	ovary
2	chr9:93983000-94027000	Weak transcription	Fetal Intestine Large	intestine
3	chr9:93983000-94054000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:93983200-94027800	Weak transcription	Adipose Nuclei	Adipose
5	chr9:93984000-94052200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:93984000-94054600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr9:93984200-94024000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:93984400-94026200	Weak transcription	Primary T cells from cord blood	blood
9	chr9:93995800-94052400	Weak transcription	Fetal Stomach	stomach
10	chr9:94002800-94032600	Weak transcription	Placenta	Placenta
11	chr9:94004600-94051800	Weak transcription	Liver	Liver
12	chr9:94008600-94036200	Weak transcription	HSMM	muscle
13	chr9:94010000-94031600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:94011400-94055400	Weak transcription	Brain Cingulate Gyrus	brain
15	chr9:94016000-94025800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr9:94016000-94030400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr9:94016600-94026400	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr9:94019000-94027000	Weak transcription	NHLF	lung
19	chr9:94019000-94027400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:94019000-94032400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr9:94019000-94032400	Weak transcription	Fetal Brain Male	brain
22	chr9:94019000-94034800	Weak transcription	Fetal Lung	lung
23	chr9:94019000-94036600	Weak transcription	NHDF-Ad	bronchial
24	chr9:94019000-94056600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:94019200-94026800	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr9:94019200-94027400	Weak transcription	Fetal Intestine Small	intestine
27	chr9:94019200-94037000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr9:94019200-94037400	Weak transcription	Psoas Muscle	Psoas
29	chr9:94019200-94040200	Weak transcription	Gastric	stomach
30	chr9:94019200-94059200	Weak transcription	Spleen	Spleen
31	chr9:94019400-94025000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr9:94019400-94031600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr9:94019400-94053400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr9:94019400-94068200	Weak transcription	Right Ventricle	heart
35	chr9:94019800-94044000	Weak transcription	Left Ventricle	heart
36	chr9:94023200-94024000	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr9:94023400-94024000	Enhancers	Monocytes-CD14+_RO01746	blood
38	chr9:94023600-94024200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr9:94023800-94024200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:94023800-94024200	Enhancers	Fetal Heart	heart
41	chr9:94023800-94024800	Enhancers	Cortex derived primary cultured neurospheres	brain
42	chr9:94023800-94024800	Enhancers	HepG2	liver
43	chr9:94023800-94048400	Weak transcription	Brain Hippocampus Middle	brain

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