Variant report

Variant	rs11097262
Chromosome Location	chr4:77114936-77114937
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	chr17:62221990..62223690-chr4:77114396..77116252,2	MCF-7	breast:
2	chr4:77108730..77110793-chr4:77112512..77115192,2	K562	blood:

Variant related genes	Relation type
ENSG00000199753	Chromatin interaction
ENSG00000266402	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10008834	1.00[CEU][hapmap];0.84[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs10015467	1.00[YRI][hapmap]
rs10028141	0.83[CHB][hapmap];1.00[YRI][hapmap]
rs11097230	0.82[JPT][hapmap]
rs11938626	0.80[JPT][hapmap];0.81[ASN][1000 genomes]
rs11944608	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs11946079	0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs11947458	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs13141895	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.90[EUR][1000 genomes]
rs17001573	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28465660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28563976	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3816248	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4859429	0.80[ASN][1000 genomes]
rs4859626	0.81[ASN][1000 genomes]
rs6824953	0.80[JPT][hapmap];0.90[ASN][1000 genomes]
rs6825004	0.88[JPT][hapmap];0.89[ASN][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	nsv461558	chr4:77033725-77115553	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv594694	chr4:77033725-77115553	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:77097400-77115000	Weak transcription	NH-A	brain
2	chr4:77097600-77119600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr4:77105600-77115000	Weak transcription	Fetal Heart	heart
4	chr4:77109800-77117400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr4:77110200-77117000	Strong transcription	Primary T cells from cord blood	blood
6	chr4:77110600-77116600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr4:77111000-77118000	Strong transcription	Duodenum Mucosa	Duodenum
8	chr4:77111200-77115200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr4:77111400-77115000	Strong transcription	Muscle Satellite Cultured Cells	--
10	chr4:77112000-77115000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:77112400-77115200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
12	chr4:77112400-77115200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr4:77112400-77115400	Strong transcription	Duodenum Smooth Muscle	Duodenum
14	chr4:77112400-77117000	Genic enhancers	Brain Substantia Nigra	brain
15	chr4:77112600-77115000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr4:77112600-77115200	Strong transcription	Aorta	Aorta
17	chr4:77112600-77115400	Genic enhancers	Gastric	stomach
18	chr4:77112600-77116200	Strong transcription	Rectal Mucosa Donor 29	rectum
19	chr4:77112600-77117000	Strong transcription	Primary neutrophils fromperipheralblood	blood
20	chr4:77113000-77115400	Genic enhancers	Left Ventricle	heart
21	chr4:77113000-77115400	Genic enhancers	Pancreas	Pancrea
22	chr4:77113000-77117000	Strong transcription	Rectal Smooth Muscle	rectum
23	chr4:77113000-77117200	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr4:77113000-77117400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr4:77113200-77115600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:77113200-77115600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
27	chr4:77113200-77115800	Strong transcription	Fetal Brain Female	brain
28	chr4:77113200-77116000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
29	chr4:77113200-77117000	Strong transcription	Primary T cells fromperipheralblood	blood
30	chr4:77113200-77134000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr4:77113400-77115000	Strong transcription	HSMM	muscle
32	chr4:77113400-77115200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr4:77113400-77115200	Genic enhancers	Fetal Intestine Large	intestine
34	chr4:77113400-77115400	Strong transcription	Placenta Amnion	Placenta Amnion
35	chr4:77113400-77116200	Genic enhancers	Brain Angular Gyrus	brain
36	chr4:77113400-77116800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr4:77113400-77117200	Strong transcription	Stomach Smooth Muscle	stomach
38	chr4:77113600-77115000	Strong transcription	NHEK	skin
39	chr4:77113600-77115200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
40	chr4:77113600-77115400	Genic enhancers	Lung	lung
41	chr4:77113600-77115600	Strong transcription	A549	lung
42	chr4:77113600-77116200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
43	chr4:77113600-77117000	Genic enhancers	Monocytes-CD14+_RO01746	blood
44	chr4:77113600-77118800	Strong transcription	Dnd41	blood
45	chr4:77113600-77134200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr4:77113800-77115000	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr4:77113800-77115000	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr4:77113800-77115000	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr4:77113800-77115400	Strong transcription	Thymus	Thymus
50	chr4:77113800-77116200	Genic enhancers	Brain Cingulate Gyrus	brain

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