Variant report

Variant	rs10260884
Chromosome Location	chr7:98481800-98481801
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	chr7:98475067..98476931-chr7:98481097..98483365,2	MCF-7	breast:
2	chr7:98474512..98479039-chr7:98480713..98484899,10	K562	blood:

Variant related genes	Relation type
ENSG00000196367	Chromatin interaction

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

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

rs_ID	r²[population]
rs10215494	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs10230563	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs10242106	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs10269427	1.00[EUR][1000 genomes]
rs11771770	1.00[EUR][1000 genomes]
rs122152	0.80[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs160385	0.83[AFR][1000 genomes]
rs160386	0.81[AFR][1000 genomes]
rs160387	0.88[AFR][1000 genomes]
rs17161491	0.85[LWK][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap]
rs219801	0.87[MKK][hapmap];1.00[TSI][hapmap]
rs219802	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs219803	0.89[AFR][1000 genomes]
rs219804	0.82[AFR][1000 genomes]
rs219810	0.91[LWK][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs219811	0.83[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap]
rs219812	0.82[YRI][hapmap];0.81[AMR][1000 genomes]
rs219818	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs219836	0.86[AFR][1000 genomes]
rs219837	0.81[AMR][1000 genomes]
rs219840	1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs28556608	0.90[AMR][1000 genomes]
rs310736	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs310737	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs310739	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs310741	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs58666420	0.90[AMR][1000 genomes]
rs60932686	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs61239201	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6945370	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6949335	0.90[AMR][1000 genomes]
rs6956697	0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6959321	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6960312	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs6963517	1.00[AMR][1000 genomes]
rs6967096	0.85[AMR][1000 genomes]
rs73409107	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs7457148	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs882394	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024529	chr7:98194830-98793518	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv539036	chr7:98194830-98793518	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:130 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98477800-98482000	Weak transcription	Esophagus	oesophagus
2	chr7:98477800-98484600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr7:98477800-98484600	Weak transcription	Stomach Mucosa	stomach
4	chr7:98477800-98488000	Weak transcription	Small Intestine	intestine
5	chr7:98477800-98490600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr7:98477800-98599600	Weak transcription	Right Atrium	heart
7	chr7:98478000-98482000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr7:98478000-98483600	Strong transcription	K562	blood
9	chr7:98478000-98497200	Weak transcription	Fetal Heart	heart
10	chr7:98478000-98618600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr7:98478200-98483000	Strong transcription	NHLF	lung
12	chr7:98478200-98484600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr7:98478200-98485200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr7:98478200-98488000	Weak transcription	Colonic Mucosa	Colon
15	chr7:98478200-98488000	Weak transcription	Fetal Brain Male	brain
16	chr7:98478200-98504200	Strong transcription	Cortex derived primary cultured neurospheres	brain
17	chr7:98478200-98511000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:98478200-98511400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr7:98478200-98536200	Strong transcription	Fetal Intestine Small	intestine
20	chr7:98478200-98583200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr7:98478200-98606000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr7:98478400-98483000	Weak transcription	Colon Smooth Muscle	Colon
23	chr7:98478400-98488000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr7:98478400-98503600	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr7:98478400-98526800	Strong transcription	Primary T cells fromperipheralblood	blood
26	chr7:98478600-98482400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
27	chr7:98478600-98482400	Strong transcription	Stomach Smooth Muscle	stomach
28	chr7:98478600-98482600	Strong transcription	Muscle Satellite Cultured Cells	--
29	chr7:98478600-98482600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr7:98478600-98482600	Strong transcription	A549	lung
31	chr7:98478600-98482800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr7:98478600-98483000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr7:98478600-98483200	Strong transcription	Adipose Nuclei	Adipose
34	chr7:98478600-98483600	Strong transcription	Duodenum Smooth Muscle	Duodenum
35	chr7:98478600-98485800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr7:98478600-98486200	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr7:98478600-98488400	Strong transcription	Primary hematopoietic stem cells	blood
38	chr7:98478600-98492400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr7:98478600-98492600	Strong transcription	Fetal Muscle Trunk	muscle
40	chr7:98478600-98499000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr7:98478600-98504200	Strong transcription	Duodenum Mucosa	Duodenum
42	chr7:98478600-98504800	Strong transcription	HUES6 Cell Line	embryonic stem cell
43	chr7:98478600-98505000	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr7:98478600-98511000	Strong transcription	Thymus	Thymus
45	chr7:98478600-98511800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr7:98478600-98536200	Strong transcription	Fetal Muscle Leg	muscle
47	chr7:98478600-98541600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
48	chr7:98478600-98583200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr7:98478600-98583400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr7:98478600-98613800	Strong transcription	iPS-18 Cell Line	embryonic stem cell

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