Variant report

Variant	rs10787544
Chromosome Location	chr10:116410970-116410971
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	chr10:116406281..116408258-chr10:116409177..116411932,2	MCF-7	breast:
2	chr10:116409220..116412035-chr10:116412365..116414494,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10885589	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10885590	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1109267	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11196828	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11196835	0.93[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11196843	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11196850	0.93[CEU][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11196860	0.81[AMR][1000 genomes]
rs11593135	1.00[YRI][hapmap]
rs11597188	1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs12220330	0.96[ASN][1000 genomes]
rs12570718	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12776647	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1333681	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17719358	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35505004	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4568917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4606401	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116394400-116422600	Weak transcription	Fetal Intestine Small	intestine
2	chr10:116399800-116413800	Weak transcription	Spleen	Spleen
3	chr10:116403200-116412200	Weak transcription	Brain Anterior Caudate	brain
4	chr10:116404400-116411000	Enhancers	Fetal Heart	heart
5	chr10:116404600-116411200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr10:116404800-116412200	Weak transcription	Lung	lung
7	chr10:116405200-116413400	Weak transcription	Colonic Mucosa	Colon
8	chr10:116406200-116412800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr10:116406200-116422000	Weak transcription	Fetal Lung	lung
10	chr10:116407800-116411400	Enhancers	HepG2	liver
11	chr10:116408200-116412800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr10:116408400-116415600	Enhancers	HUVEC	blood vessel
13	chr10:116408600-116411000	Enhancers	A549	lung
14	chr10:116408600-116413600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr10:116408600-116422000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr10:116408600-116441400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr10:116408800-116413000	Weak transcription	Psoas Muscle	Psoas
18	chr10:116408800-116427400	Weak transcription	Primary hematopoietic stem cells	blood
19	chr10:116409000-116411400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr10:116409000-116414600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:116409400-116411000	Enhancers	Ovary	ovary
22	chr10:116409400-116411800	Enhancers	Pancreas	Pancrea
23	chr10:116409400-116414200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr10:116409600-116411400	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr10:116409600-116412000	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr10:116409600-116413400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr10:116409600-116414200	Weak transcription	NHEK	skin
28	chr10:116409600-116414400	Weak transcription	Placenta	Placenta
29	chr10:116409600-116414400	Weak transcription	Hela-S3	cervix
30	chr10:116409600-116421200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr10:116409600-116423600	Weak transcription	Esophagus	oesophagus
32	chr10:116410000-116411000	Weak transcription	Right Atrium	heart
33	chr10:116410000-116411000	Weak transcription	Right Ventricle	heart
34	chr10:116410200-116412800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr10:116410200-116414400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr10:116410200-116414600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr10:116410200-116414800	Weak transcription	HSMMtube	muscle
38	chr10:116410400-116411000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr10:116410400-116414400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr10:116410600-116411000	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr10:116410600-116411200	Enhancers	Gastric	stomach
42	chr10:116410600-116411600	Weak transcription	Adipose Nuclei	Adipose
43	chr10:116410600-116411800	Enhancers	Left Ventricle	heart
44	chr10:116410800-116411600	Weak transcription	NHDF-Ad	bronchial
45	chr10:116410800-116412200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr10:116410800-116412400	Weak transcription	Stomach Mucosa	stomach
47	chr10:116410800-116413800	Enhancers	Liver	Liver
48	chr10:116410800-116422000	Weak transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links