Variant report

Variant	rs1566126
Chromosome Location	chrX:74375489-74375490
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	chr16:576620..578202-chrX:74374249..74376331,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103326	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1039123	1.00[YRI][hapmap]
rs1340989	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs1340990	0.98[MKK][hapmap]
rs1361702	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs1418343	0.82[MKK][hapmap]
rs1472396	0.98[MKK][hapmap]
rs4892392	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs4892559	1.00[YRI][hapmap]
rs5937962	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs5981325	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs5981761	0.98[MKK][hapmap]
rs5981784	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916758	chrX:73546406-74420929	Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv531128	chrX:74232814-74416887	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv3365132	chrX:74308852-74407212	Active TSS Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv534085	chrX:74360310-74516106	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:74373800-74377200	Active TSS	GM12878-XiMat	blood
2	chrX:74374000-74376800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chrX:74374200-74377000	Active TSS	K562	blood
4	chrX:74374400-74376600	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chrX:74374600-74376200	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chrX:74374600-74376600	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chrX:74374800-74375600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chrX:74374800-74376200	Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chrX:74374800-74376600	Active TSS	H1 Cell Line	embryonic stem cell
10	chrX:74374800-74376600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chrX:74374800-74376800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
12	chrX:74374800-74376800	Active TSS	Fetal Intestine Large	intestine
13	chrX:74374800-74376800	Active TSS	Stomach Mucosa	stomach
14	chrX:74374800-74376800	Active TSS	NH-A	brain
15	chrX:74374800-74377000	Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chrX:74374800-74377000	Active TSS	Fetal Brain Female	brain
17	chrX:74374800-74377000	Active TSS	Fetal Muscle Leg	muscle
18	chrX:74374800-74377000	Active TSS	Right Atrium	heart
19	chrX:74374800-74377000	Active TSS	NHDF-Ad	bronchial
20	chrX:74374800-74377200	Active TSS	ES-I3 Cell Line	embryonic stem cell
21	chrX:74374800-74377200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chrX:74375000-74375600	Active TSS	HepG2	liver
23	chrX:74375000-74376600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chrX:74375000-74376600	Active TSS	Skeletal Muscle Male	skeletal muscle
25	chrX:74375000-74376600	Active TSS	HMEC	breast
26	chrX:74375000-74376800	Active TSS	iPS-15b Cell Line	embryonic stem cell
27	chrX:74375000-74376800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
28	chrX:74375000-74376800	Active TSS	Brain Substantia Nigra	brain
29	chrX:74375000-74377000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chrX:74375000-74377000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chrX:74375000-74377000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chrX:74375000-74377000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chrX:74375000-74377000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chrX:74375000-74377000	Active TSS	Duodenum Mucosa	Duodenum
35	chrX:74375000-74377000	Active TSS	Duodenum Smooth Muscle	Duodenum
36	chrX:74375000-74377200	Active TSS	Rectal Mucosa Donor 29	rectum
37	chrX:74375200-74375600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
38	chrX:74375200-74375600	Flanking Active TSS	Primary B cells from peripheral blood	blood
39	chrX:74375200-74375600	Flanking Active TSS	Primary hematopoietic stem cells	blood
40	chrX:74375200-74375600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
41	chrX:74375200-74375800	Active TSS	Fetal Muscle Trunk	muscle
42	chrX:74375200-74375800	Active TSS	Fetal Stomach	stomach
43	chrX:74375200-74376200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chrX:74375200-74376200	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
45	chrX:74375200-74376400	Active TSS	Fetal Heart	heart
46	chrX:74375200-74376400	Active TSS	Hela-S3	cervix
47	chrX:74375200-74376600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
48	chrX:74375200-74376600	Active TSS	H9 Cell Line	embryonic stem cell
49	chrX:74375200-74376600	Active TSS	HUVEC	blood vessel
50	chrX:74375200-74376800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links