Variant report

Variant	rs10904575
Chromosome Location	chr10:890252-890253
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:890079..892207-chr10:894846..896504,2	K562	blood:
2	chr10:887619..890410-chr10:894669..896676,2	MCF-7	breast:
3	chr10:884410..889606-chr10:890203..894032,6	MCF-7	breast:
4	chr10:888915..891508-chr10:975233..977563,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107929	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1057304	0.87[CHB][hapmap]
rs10752021	0.95[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs11253451	0.86[CHB][hapmap]
rs11253471	1.00[CHB][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs11253474	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11253487	0.81[ASN][1000 genomes]
rs12243303	0.91[CHB][hapmap]
rs1536338	0.86[CHB][hapmap]
rs1555897	0.86[CHB][hapmap]
rs1555898	0.86[CHB][hapmap]
rs2892159	0.85[ASN][1000 genomes]
rs3763722	0.91[CHB][hapmap]
rs4229	0.82[CHB][hapmap]
rs4362075	0.95[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs4880743	0.87[CHB][hapmap]
rs7069505	0.92[CEU][hapmap]
rs7071801	0.91[CHB][hapmap]
rs7077992	0.85[CEU][hapmap];0.86[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7080989	0.86[CHB][hapmap]
rs7091806	0.89[CHB][hapmap]
rs749297	0.95[CHB][hapmap]
rs752375	0.85[CHB][hapmap]
rs7703	0.91[CHB][hapmap]
rs7899871	0.86[CHB][hapmap];0.81[ASN][1000 genomes]
rs9124	0.90[CHB][hapmap]
rs997615	0.91[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916591	chr10:224406-1088734	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv540386	chr10:224406-1197416	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv549753	chr10:458477-894838	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
4	nsv1054659	chr10:611444-1133578	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	43 gene(s)	inside rSNPs	diseases
5	nsv948602	chr10:708293-944641	Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv949063	chr10:708293-974870	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv466697	chr10:734229-1129527	ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
8	nsv549765	chr10:734229-1129527	Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
9	nsv1043812	chr10:776547-981126	Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv540406	chr10:776547-981126	Bivalent Enhancer Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv530116	chr10:776548-1401075	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
12	nsv948978	chr10:813426-1019115	Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
13	nsv1048707	chr10:834439-915534	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
14	nsv1052540	chr10:887562-1300134	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
15	nsv540407	chr10:887562-1300134	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:851600-890800	Strong transcription	Duodenum Mucosa	Duodenum
2	chr10:851600-895600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr10:851800-894000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr10:851800-895800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr10:852200-956400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr10:852800-891800	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr10:852800-894600	Strong transcription	Rectal Mucosa Donor 29	rectum
8	chr10:852800-895000	Strong transcription	Fetal Thymus	thymus
9	chr10:856200-892800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:869400-890800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:869600-894000	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr10:869600-895200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr10:869600-896000	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr10:870000-892000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr10:870000-892200	Strong transcription	Primary B cells from peripheral blood	blood
16	chr10:870000-896400	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr10:870600-892200	Strong transcription	Primary T helper cells fromperipheralblood	blood
18	chr10:870600-959400	Weak transcription	Stomach Mucosa	stomach
19	chr10:873400-895600	Strong transcription	Primary B cells from cord blood	blood
20	chr10:875400-903000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:878600-891600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr10:878800-890400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr10:878800-890800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr10:878800-891000	Strong transcription	Primary T helper cells PMA-I stimulated	--
25	chr10:879000-895600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:880000-891600	Strong transcription	Liver	Liver
27	chr10:880000-893200	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr10:881000-890800	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr10:883200-917200	Weak transcription	Colonic Mucosa	Colon
30	chr10:884000-890400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:884000-890600	Strong transcription	Placenta	Placenta
32	chr10:884000-890800	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr10:884000-892000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr10:884200-890800	Strong transcription	NHDF-Ad	bronchial
35	chr10:884200-895800	Strong transcription	Primary T cells from cord blood	blood
36	chr10:884400-890400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr10:884400-890400	Strong transcription	Fetal Stomach	stomach
38	chr10:884400-890400	Strong transcription	Sigmoid Colon	Sigmoid Colon
39	chr10:884400-890600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr10:884400-890800	Strong transcription	Adipose Nuclei	Adipose
41	chr10:884400-890800	Strong transcription	Rectal Smooth Muscle	rectum
42	chr10:884400-890800	Strong transcription	Stomach Smooth Muscle	stomach
43	chr10:884400-891000	Strong transcription	Thymus	Thymus
44	chr10:884400-891200	Strong transcription	K562	blood
45	chr10:884400-892000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr10:884600-890400	Strong transcription	Brain Anterior Caudate	brain
47	chr10:884600-890400	Strong transcription	Fetal Lung	lung
48	chr10:884600-890600	Strong transcription	Fetal Intestine Large	intestine
49	chr10:884600-890800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr10:884600-890800	Strong transcription	HepG2	liver

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