Variant report

Variant	rs966416
Chromosome Location	chr7:26415473-26415474
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:26240504..26242868-chr7:26414665..26416985,3	MCF-7	breast:
2	chr7:26330267..26332166-chr7:26413349..26415882,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000086300	Chromatin interaction
ENSG00000122566	Chromatin interaction
ENSG00000122565	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10807832	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10951132	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10951133	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10951134	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10951135	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10951136	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10951137	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12531639	0.85[ASN][1000 genomes]
rs12670965	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12673463	0.82[ASN][1000 genomes]
rs13241375	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17153504	0.82[ASN][1000 genomes]
rs3193526	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6461934	0.87[EUR][1000 genomes]
rs6461935	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6461936	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6950352	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6967677	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7780256	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7780650	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7799362	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9638835	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9639536	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9639538	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9639539	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021308	chr7:26116605-26419720	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	166 gene(s)	inside rSNPs	diseases
2	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26403800-26415600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr7:26407400-26415600	Weak transcription	Spleen	Spleen
3	chr7:26413400-26415600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr7:26413600-26415600	Bivalent/Poised TSS	Fetal Kidney	kidney
5	chr7:26413600-26416800	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:26414000-26417000	Active TSS	Pancreatic Islets	Pancreatic Islet
7	chr7:26414200-26416800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr7:26414600-26416400	Active TSS	Primary hematopoietic stem cells short term culture	blood
9	chr7:26414600-26416800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr7:26414800-26415600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
11	chr7:26415000-26416800	Active TSS	iPS-18 Cell Line	embryonic stem cell
12	chr7:26415200-26415600	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr7:26415200-26415600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
14	chr7:26415200-26415600	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
15	chr7:26415200-26415600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chr7:26415200-26415600	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
17	chr7:26415200-26415600	Enhancers	Primary B cells from peripheral blood	blood
18	chr7:26415200-26415600	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
19	chr7:26415200-26415600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
20	chr7:26415200-26415600	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
21	chr7:26415200-26415600	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
22	chr7:26415200-26415600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr7:26415200-26415600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr7:26415200-26415600	Active TSS	Brain Germinal Matrix	brain
25	chr7:26415200-26415600	Bivalent/Poised TSS	Brain Substantia Nigra	brain
26	chr7:26415200-26415600	Flanking Active TSS	Fetal Brain Female	brain
27	chr7:26415200-26415600	Bivalent/Poised TSS	Thymus	Thymus
28	chr7:26415200-26415800	Flanking Active TSS	Liver	Liver
29	chr7:26415200-26416000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr7:26415200-26416000	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
31	chr7:26415200-26416000	Bivalent Enhancer	Colon Smooth Muscle	Colon
32	chr7:26415200-26416200	Active TSS	Rectal Mucosa Donor 29	rectum
33	chr7:26415200-26416800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
34	chr7:26415200-26416800	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr7:26415200-26416800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
36	chr7:26415200-26417000	Active TSS	H1 Cell Line	embryonic stem cell
37	chr7:26415200-26417200	Active TSS	H9 Cell Line	embryonic stem cell
38	chr7:26415400-26415600	Bivalent/Poised TSS	Primary T cells from cord blood	blood
39	chr7:26415400-26415600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
40	chr7:26415400-26415600	Flanking Active TSS	Primary hematopoietic stem cells	blood
41	chr7:26415400-26415600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
42	chr7:26415400-26415600	Flanking Bivalent TSS/Enh	Primary T helper memory cells from peripheral blood 1	blood
43	chr7:26415400-26415600	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
44	chr7:26415400-26415600	Bivalent/Poised TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr7:26415400-26415600	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
46	chr7:26415400-26415600	Flanking Active TSS	Adipose Nuclei	Adipose
47	chr7:26415400-26415600	Bivalent/Poised TSS	Brain Anterior Caudate	brain
48	chr7:26415400-26415600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
49	chr7:26415400-26415600	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
50	chr7:26415400-26415600	Bivalent Enhancer	Colonic Mucosa	Colon

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