Variant report

Variant	rs771462
Chromosome Location	chr1:93814825-93814826
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYC	chr1:93814404-93814991	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:93809993..93812925-chr1:93814019..93816976,3	MCF-7	breast:
2	chr1:93642386..93644618-chr1:93813352..93815941,2	K562	blood:
3	chr1:93813688..93816187-chr1:93818806..93820791,2	MCF-7	breast:
4	chr1:93789973..93792752-chr1:93813733..93815451,2	K562	blood:
5	chr1:93810887..93813199-chr1:93813270..93816072,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223745	TF binding region
ENSG00000223745	Chromatin interaction
ENSG00000117505	Chromatin interaction

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10443193	0.92[EUR][1000 genomes]
rs1081522	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10874783	0.91[EUR][1000 genomes]
rs10874784	0.91[EUR][1000 genomes]
rs11164885	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11164897	0.87[AFR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11164905	0.82[ASN][1000 genomes]
rs11164908	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11164921	0.92[EUR][1000 genomes]
rs11576494	0.80[ASN][1000 genomes]
rs12030843	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12031709	0.89[AFR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12031765	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12033147	0.82[ASN][1000 genomes]
rs12036057	0.82[ASN][1000 genomes]
rs12044557	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12044883	0.81[ASN][1000 genomes]
rs12048219	0.81[ASN][1000 genomes]
rs12133576	0.81[ASN][1000 genomes]
rs12405487	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12563120	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12566752	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12752223	0.81[ASN][1000 genomes]
rs1365297	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1559828	0.81[ASN][1000 genomes]
rs2114271	0.92[EUR][1000 genomes]
rs2114272	0.91[EUR][1000 genomes]
rs2162276	0.91[EUR][1000 genomes]
rs2391251	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3087457	0.84[ASN][1000 genomes]
rs35628716	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35910103	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35915989	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3767962	0.81[ASN][1000 genomes]
rs3767964	0.81[ASN][1000 genomes]
rs3904665	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4484937	0.82[ASN][1000 genomes]
rs4847240	0.81[ASN][1000 genomes]
rs4847241	0.92[EUR][1000 genomes]
rs4847242	0.92[EUR][1000 genomes]
rs4847412	0.81[ASN][1000 genomes]
rs4847426	0.92[EUR][1000 genomes]
rs58354545	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61266405	0.85[AFR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61799500	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61799516	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61799538	0.82[ASN][1000 genomes]
rs6541349	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6658257	0.81[ASN][1000 genomes]
rs6676902	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6680022	0.81[ASN][1000 genomes]
rs6684908	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6691545	0.92[EUR][1000 genomes]
rs6694508	0.81[ASN][1000 genomes]
rs698927	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72959220	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7525248	0.81[ASN][1000 genomes]
rs771454	0.87[ASN][1000 genomes]
rs771458	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs771461	0.87[ASN][1000 genomes]
rs771465	0.87[ASN][1000 genomes]
rs771470	0.81[ASN][1000 genomes]
rs771476	0.83[ASN][1000 genomes]
rs771478	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs771479	0.84[ASN][1000 genomes]
rs771481	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs771482	0.84[ASN][1000 genomes]
rs810027	0.83[ASN][1000 genomes]
rs812214	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv871640	chr1:93807122-93953469	Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93809800-93817200	Active TSS	GM12878-XiMat	blood
2	chr1:93810000-93815400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr1:93810200-93815600	Active TSS	Rectal Smooth Muscle	rectum
4	chr1:93810400-93815000	Active TSS	HUES48 Cell Line	embryonic stem cell
5	chr1:93810400-93815000	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr1:93810400-93815000	Active TSS	Stomach Smooth Muscle	stomach
7	chr1:93810400-93815000	Active TSS	A549	lung
8	chr1:93810400-93815200	Active TSS	ES-I3 Cell Line	embryonic stem cell
9	chr1:93810400-93815200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:93810400-93815200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr1:93810400-93815200	Active TSS	iPS-15b Cell Line	embryonic stem cell
12	chr1:93810400-93815200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr1:93810400-93815200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr1:93810400-93815200	Active TSS	K562	blood
15	chr1:93810400-93815200	Active TSS	NHLF	lung
16	chr1:93810400-93815400	Active TSS	iPS-20b Cell Line	embryonic stem cell
17	chr1:93810400-93815400	Active TSS	Fetal Intestine Large	intestine
18	chr1:93810400-93815400	Active TSS	HSMM	muscle
19	chr1:93810400-93815600	Active TSS	H1 Cell Line	embryonic stem cell
20	chr1:93810400-93815600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr1:93810400-93815600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:93810400-93816200	Active TSS	HSMMtube	muscle
23	chr1:93810600-93815200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
24	chr1:93810600-93815200	Active TSS	Fetal Stomach	stomach
25	chr1:93810600-93815200	Active TSS	NHDF-Ad	bronchial
26	chr1:93810600-93815600	Active TSS	Fetal Muscle Leg	muscle
27	chr1:93810600-93815600	Active TSS	Fetal Thymus	thymus
28	chr1:93810600-93815600	Active TSS	Right Atrium	heart
29	chr1:93810600-93815800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr1:93810600-93815800	Active TSS	Thymus	Thymus
31	chr1:93810800-93815000	Active TSS	Primary T helper cells PMA-I stimulated	--
32	chr1:93810800-93815200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr1:93810800-93815200	Active TSS	Brain Inferior Temporal Lobe	brain
34	chr1:93810800-93815200	Active TSS	Fetal Kidney	kidney
35	chr1:93810800-93815400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr1:93810800-93815400	Active TSS	Muscle Satellite Cultured Cells	--
37	chr1:93810800-93815400	Active TSS	Aorta	Aorta
38	chr1:93810800-93815400	Active TSS	NHEK	skin
39	chr1:93810800-93815600	Active TSS	Breast Myoepithelial Primary Cells	Breast
40	chr1:93810800-93815800	Active TSS	HMEC	breast
41	chr1:93811000-93815200	Active TSS	Skeletal Muscle Male	skeletal muscle
42	chr1:93811600-93816600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr1:93812000-93815600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr1:93812000-93816000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr1:93812200-93815400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr1:93812200-93815600	Flanking Active TSS	Adipose Nuclei	Adipose
47	chr1:93812400-93815000	Flanking Active TSS	Primary hematopoietic stem cells	blood
48	chr1:93812600-93817200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr1:93812800-93815400	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
50	chr1:93812800-93815400	Active TSS	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links