Variant report

Variant	rs10993277
Chromosome Location	chr9:97407552-97407553
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97406984..97409530-chr9:97419873..97421419,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1042144	0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs10512235	1.00[YRI][hapmap]
rs10761350	0.83[ASN][1000 genomes]
rs10821376	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10821377	0.83[ASN][1000 genomes]
rs10993275	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993278	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12238876	0.84[EUR][1000 genomes]
rs13284668	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13291835	0.86[EUR][1000 genomes]
rs13296485	0.87[EUR][1000 genomes]
rs16937175	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1754435	0.87[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs1754439	0.91[CEU][hapmap];0.85[CHB][hapmap];0.85[EUR][1000 genomes]
rs1999122	0.86[CHB][hapmap]
rs2017136	0.86[CHB][hapmap]
rs2296708	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2679599	0.84[EUR][1000 genomes]
rs2679600	0.84[EUR][1000 genomes]
rs2772022	0.84[EUR][1000 genomes]
rs2790390	0.84[EUR][1000 genomes]
rs28369670	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2987897	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2993905	0.92[CEU][hapmap]
rs2993912	0.83[EUR][1000 genomes]
rs2993958	0.91[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs2993959	0.83[EUR][1000 genomes]
rs2993961	0.91[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs2993962	0.82[EUR][1000 genomes]
rs3824484	0.86[CHB][hapmap]
rs3896183	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4075984	0.87[EUR][1000 genomes]
rs4743961	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743962	0.94[ASN][1000 genomes]
rs4744362	0.96[CEU][hapmap];1.00[CHB][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs547834	0.81[EUR][1000 genomes]
rs548348	0.87[CEU][hapmap];0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs583365	0.84[EUR][1000 genomes]
rs6479560	0.83[ASN][1000 genomes]
rs67721291	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8192689	0.91[CEU][hapmap];0.85[CHB][hapmap];0.86[EUR][1000 genomes]
rs874248	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes]
rs9695	0.85[CHB][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv614918	chr9:97380597-97412037	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97402200-97410400	Weak transcription	Esophagus	oesophagus
2	chr9:97402400-97420000	Weak transcription	Right Atrium	heart
3	chr9:97402600-97411000	Weak transcription	Gastric	stomach
4	chr9:97402600-97415400	Weak transcription	Spleen	Spleen
5	chr9:97402800-97411600	Weak transcription	Primary B cells from cord blood	blood
6	chr9:97403000-97410600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr9:97404000-97408200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:97405000-97410400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:97405200-97411200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:97405600-97407600	Enhancers	Stomach Mucosa	stomach
11	chr9:97405800-97410400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:97405800-97418400	Weak transcription	Fetal Stomach	stomach
13	chr9:97406200-97408200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr9:97406200-97410400	Weak transcription	Lung	lung
15	chr9:97406400-97410800	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr9:97406800-97407600	Enhancers	HSMM	muscle
17	chr9:97406800-97408400	Enhancers	HSMMtube	muscle
18	chr9:97406800-97409000	Enhancers	Fetal Heart	heart
19	chr9:97407000-97407600	Enhancers	Left Ventricle	heart
20	chr9:97407000-97408200	Weak transcription	Fetal Muscle Trunk	muscle
21	chr9:97407000-97410200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr9:97407000-97410800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr9:97407000-97410800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr9:97407000-97411600	Weak transcription	Fetal Muscle Leg	muscle
25	chr9:97407000-97411800	Weak transcription	Placenta	Placenta
26	chr9:97407200-97408200	Weak transcription	Fetal Intestine Small	intestine
27	chr9:97407200-97410000	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr9:97407200-97410200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr9:97407200-97410200	Weak transcription	Hela-S3	cervix
30	chr9:97407200-97410200	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr9:97407200-97410400	Weak transcription	Duodenum Mucosa	Duodenum
32	chr9:97407400-97408400	Weak transcription	Fetal Intestine Large	intestine
33	chr9:97407400-97410200	Weak transcription	HMEC	breast
34	chr9:97407400-97410400	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links