Variant report

Variant	rs55735989
Chromosome Location	chr10:52323498-52323499
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:52319465..52323601-chr10:52381894..52385353,11	MCF-7	breast:
2	chr10:52321910..52324715-chr10:52371827..52374232,3	K562	blood:
3	chr10:52322894..52324648-chr10:52337430..52339164,2	K562	blood:
4	chr10:52318973..52324648-chr10:52334040..52339164,5	K562	blood:
5	chr10:52319893..52329540-chr10:52377624..52388129,20	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000226200	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10763584	0.80[ASN][1000 genomes]
rs11006102	0.89[ASN][1000 genomes]
rs11006119	0.89[ASN][1000 genomes]
rs11006155	0.87[ASN][1000 genomes]
rs12358162	0.89[ASN][1000 genomes]
rs1884571	0.89[ASN][1000 genomes]
rs2208036	0.87[ASN][1000 genomes]
rs2860472	0.85[ASN][1000 genomes]
rs2983360	0.91[ASN][1000 genomes]
rs3011707	0.85[ASN][1000 genomes]
rs3011710	0.80[ASN][1000 genomes]
rs3011802	0.85[ASN][1000 genomes]
rs3920545	0.80[ASN][1000 genomes]
rs4935731	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4935732	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55669848	0.89[ASN][1000 genomes]
rs56403030	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61858108	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7074405	0.88[ASN][1000 genomes]
rs7075104	0.80[ASN][1000 genomes]
rs7088807	0.84[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:86 , 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	chr10:52310400-52323800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr10:52310600-52323600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:52310600-52327200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:52311000-52323600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:52311000-52335800	Weak transcription	Esophagus	oesophagus
11	chr10:52312800-52335800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:52312800-52335800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr10:52313200-52333200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr10:52313600-52337400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr10:52315000-52329600	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr10:52315200-52323600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:52315200-52337400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr10:52315600-52323800	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr10:52315600-52336000	Weak transcription	GM12878-XiMat	blood
20	chr10:52316000-52323600	Weak transcription	Fetal Intestine Small	intestine
21	chr10:52316400-52323600	Weak transcription	Gastric	stomach
22	chr10:52316400-52325200	Weak transcription	Primary B cells from peripheral blood	blood
23	chr10:52316400-52327200	Weak transcription	Fetal Muscle Leg	muscle
24	chr10:52316400-52331800	Weak transcription	Lung	lung
25	chr10:52316800-52332000	Weak transcription	Aorta	Aorta
26	chr10:52316800-52332600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr10:52318200-52331800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr10:52318400-52323800	Weak transcription	Small Intestine	intestine
29	chr10:52318400-52329600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr10:52319000-52323600	Weak transcription	Left Ventricle	heart
31	chr10:52319200-52335800	Weak transcription	Spleen	Spleen
32	chr10:52319400-52323800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr10:52319600-52335600	Weak transcription	NHEK	skin
34	chr10:52320400-52325400	Enhancers	Liver	Liver
35	chr10:52321200-52325200	Weak transcription	Right Ventricle	heart
36	chr10:52321400-52323600	Weak transcription	Duodenum Mucosa	Duodenum
37	chr10:52321400-52324600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr10:52321400-52326000	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr10:52321600-52323800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr10:52321600-52325200	Weak transcription	Brain Substantia Nigra	brain
41	chr10:52321600-52325800	Weak transcription	HMEC	breast
42	chr10:52321600-52327200	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr10:52321600-52335600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr10:52321800-52323600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr10:52321800-52325400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr10:52321800-52325400	Weak transcription	Ovary	ovary
47	chr10:52321800-52325400	Weak transcription	Right Atrium	heart
48	chr10:52321800-52325600	Weak transcription	Brain Anterior Caudate	brain
49	chr10:52321800-52326600	Weak transcription	Fetal Brain Female	brain
50	chr10:52321800-52327200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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