Variant report

Variant	rs3011802
Chromosome Location	chr10:52327054-52327055
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:52324915..52329170-chr10:52335171..52340296,4	K562	blood:
2	chr10:52324915..52329170-chr10:52337236..52340296,3	K562	blood:
3	chr10:52319893..52329540-chr10:52377624..52388129,20	MCF-7	breast:
4	chr10:52323633..52328946-chr10:52382781..52388541,7	K562	blood:

Variant related genes	Relation type
ENSG00000226200	Chromatin interaction
ENSG00000198964	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10763584	0.87[ASN][1000 genomes]
rs10763585	0.92[ASN][1000 genomes]
rs10826234	0.91[ASN][1000 genomes]
rs11006102	0.91[ASN][1000 genomes]
rs11006119	0.91[ASN][1000 genomes]
rs11006155	0.94[ASN][1000 genomes]
rs12358162	0.91[ASN][1000 genomes]
rs1884571	0.91[ASN][1000 genomes]
rs2208036	0.94[ASN][1000 genomes]
rs2983360	0.86[ASN][1000 genomes]
rs2983364	0.94[ASN][1000 genomes]
rs3011707	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3011710	0.87[ASN][1000 genomes]
rs3920545	0.87[ASN][1000 genomes]
rs4935731	0.91[ASN][1000 genomes]
rs4935732	0.91[ASN][1000 genomes]
rs55669848	0.91[ASN][1000 genomes]
rs55735989	0.85[ASN][1000 genomes]
rs56403030	0.82[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs61858108	0.91[ASN][1000 genomes]
rs6481433	0.92[ASN][1000 genomes]
rs7074405	0.93[ASN][1000 genomes]
rs7075104	0.87[ASN][1000 genomes]
rs7088807	0.91[ASN][1000 genomes]
rs7898315	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52280200-52328000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:52301600-52327200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr10:52305400-52329600	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr10:52306000-52331800	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr10:52308000-52337200	Weak transcription	Primary T cells from cord blood	blood
6	chr10:52310600-52327200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:52311000-52335800	Weak transcription	Esophagus	oesophagus
8	chr10:52312800-52335800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr10:52312800-52335800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr10:52313200-52333200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr10:52313600-52337400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr10:52315000-52329600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr10:52315200-52337400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr10:52315600-52336000	Weak transcription	GM12878-XiMat	blood
15	chr10:52316400-52327200	Weak transcription	Fetal Muscle Leg	muscle
16	chr10:52316400-52331800	Weak transcription	Lung	lung
17	chr10:52316800-52332000	Weak transcription	Aorta	Aorta
18	chr10:52316800-52332600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:52318200-52331800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr10:52318400-52329600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr10:52319200-52335800	Weak transcription	Spleen	Spleen
22	chr10:52319600-52335600	Weak transcription	NHEK	skin
23	chr10:52321600-52327200	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr10:52321600-52335600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr10:52321800-52327200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr10:52321800-52327200	Weak transcription	Brain Germinal Matrix	brain
27	chr10:52321800-52327200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr10:52321800-52331600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr10:52321800-52331600	Weak transcription	Psoas Muscle	Psoas
30	chr10:52321800-52335600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:52321800-52335600	Weak transcription	Adipose Nuclei	Adipose
32	chr10:52322000-52327200	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr10:52322000-52330200	Weak transcription	Hela-S3	cervix
34	chr10:52322000-52331000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr10:52322000-52335800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr10:52322000-52337200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr10:52322000-52348600	Weak transcription	Fetal Stomach	stomach
38	chr10:52322200-52335600	Weak transcription	NHLF	lung
39	chr10:52322800-52333800	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr10:52322800-52335600	Weak transcription	Fetal Lung	lung
41	chr10:52322800-52336000	Weak transcription	Placenta	Placenta
42	chr10:52323600-52327800	Enhancers	HUES48 Cell Line	embryonic stem cell
43	chr10:52323800-52328200	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr10:52324000-52329200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr10:52324000-52331800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr10:52324000-52336600	Weak transcription	Thymus	Thymus
47	chr10:52324000-52337400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr10:52324200-52327200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr10:52324200-52329600	Weak transcription	Fetal Intestine Large	intestine
50	chr10:52324400-52327200	Weak transcription	Fetal Heart	heart

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