Variant report

Variant	rs59225487
Chromosome Location	chr10:99037586-99037587
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99030229..99033115-chr10:99036634..99039427,3	K562	blood:
2	chr10:99036931..99039171-chr10:99085750..99087329,2	K562	blood:
3	chr10:99031855..99035094-chr10:99036519..99039061,3	K562	blood:
4	chr10:99029216..99031729-chr10:99037036..99038703,2	K562	blood:
5	chr10:99034381..99036020-chr10:99036062..99037985,2	K562	blood:
6	chr10:99036915..99039794-chr10:99077195..99080138,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213390	Chromatin interaction
ENSG00000231398	Chromatin interaction
ENSG00000165879	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10882892	0.93[ASN][1000 genomes]
rs10882893	0.93[ASN][1000 genomes]
rs11189099	1.00[ASN][1000 genomes]
rs11189110	0.93[ASN][1000 genomes]
rs11189111	0.93[ASN][1000 genomes]
rs11189112	0.93[ASN][1000 genomes]
rs11189114	0.81[ASN][1000 genomes]
rs11189116	0.93[ASN][1000 genomes]
rs11189119	0.93[ASN][1000 genomes]
rs11593801	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11593813	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11593853	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11596830	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11597976	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12355386	0.93[ASN][1000 genomes]
rs12357350	0.93[ASN][1000 genomes]
rs12359463	0.93[ASN][1000 genomes]
rs12360335	0.93[ASN][1000 genomes]
rs12360375	0.93[ASN][1000 genomes]
rs12360388	0.93[ASN][1000 genomes]
rs34664263	0.81[ASN][1000 genomes]
rs35588649	0.93[ASN][1000 genomes]
rs35728874	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57654738	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58959141	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59004415	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59123099	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59618309	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59689682	0.86[ASN][1000 genomes]
rs60120280	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61069494	1.00[ASN][1000 genomes]
rs61152254	1.00[ASN][1000 genomes]
rs61312290	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs61705627	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72835307	0.86[ASN][1000 genomes]
rs72838716	1.00[ASN][1000 genomes]
rs72838725	0.93[ASN][1000 genomes]
rs72838733	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72838741	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1041614	chr10:98928281-99083056	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	esv1797410	chr10:98983785-99041740	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1040903	chr10:98986382-99047475	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
9	nsv7507	chr10:99031233-99070690	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	esv1003170	chr10:99033406-99037659	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	esv3491377	chr10:99034084-99037694	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv2429720	chr10:99034334-99038256	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	esv3491372	chr10:99034438-99038022	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	esv3302377	chr10:99034512-99037639	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	esv6307	chr10:99034615-99037663	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	esv2304672	chr10:99034682-99037598	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98978600-99051800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:98983000-99037600	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr10:98984600-99037600	Weak transcription	Brain Hippocampus Middle	brain
4	chr10:98987200-99051200	Weak transcription	Pancreas	Pancrea
5	chr10:98989600-99038000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:98994600-99039000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:99005200-99046800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr10:99013200-99037600	Weak transcription	NHLF	lung
9	chr10:99015000-99038000	Weak transcription	Fetal Brain Male	brain
10	chr10:99015400-99038200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr10:99016000-99038600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr10:99016200-99038200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr10:99016800-99038600	Weak transcription	HUVEC	blood vessel
14	chr10:99019400-99038200	Weak transcription	K562	blood
15	chr10:99019400-99050000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr10:99019400-99051600	Weak transcription	Ovary	ovary
17	chr10:99021400-99051000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr10:99023600-99051200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:99024000-99046800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr10:99024000-99050800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr10:99024400-99050000	Weak transcription	Spleen	Spleen
22	chr10:99024800-99051200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr10:99025800-99038000	Weak transcription	Fetal Stomach	stomach
24	chr10:99025800-99039200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr10:99025800-99039200	Weak transcription	Fetal Muscle Leg	muscle
26	chr10:99025800-99050800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr10:99026000-99038600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr10:99026000-99051200	Weak transcription	Primary T cells from cord blood	blood
29	chr10:99027600-99046200	Weak transcription	Thymus	Thymus
30	chr10:99027800-99045600	Weak transcription	Fetal Thymus	thymus
31	chr10:99028400-99038200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr10:99028600-99051200	Weak transcription	Small Intestine	intestine
33	chr10:99028800-99046800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr10:99029400-99037800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr10:99030600-99037800	Weak transcription	A549	lung
36	chr10:99030600-99038400	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr10:99030800-99037600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr10:99030800-99038000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr10:99031400-99050400	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr10:99034400-99037800	Weak transcription	Fetal Intestine Small	intestine
41	chr10:99034800-99039200	Weak transcription	Psoas Muscle	Psoas
42	chr10:99034800-99046600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr10:99035000-99037600	Weak transcription	Adipose Nuclei	Adipose
44	chr10:99037200-99039600	Enhancers	Primary hematopoietic stem cells	blood
45	chr10:99037200-99040000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr10:99037400-99037800	Flanking Active TSS	GM12878-XiMat	blood
47	chr10:99037400-99038000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr10:99037400-99038200	Enhancers	Primary B cells from cord blood	blood
49	chr10:99037400-99038400	Enhancers	Monocytes-CD14+_RO01746	blood
50	chr10:99037400-99038600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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