Variant report

Variant	rs3792662
Chromosome Location	chr4:95470211-95470212
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:95466562..95469843-chr4:95470075..95473924,5	K562	blood:
2	chr4:95464708..95469426-chr4:95470140..95474023,5	K562	blood:
3	chr4:95443271..95445067-chr4:95469458..95471347,2	K562	blood:
4	chr4:95456523..95459012-chr4:95469903..95471763,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163110	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10003483	1.00[CEU][hapmap]
rs10019452	0.86[JPT][hapmap]
rs10026467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10516952	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11722955	0.88[ASW][hapmap];0.86[JPT][hapmap]
rs11725792	0.83[EUR][1000 genomes]
rs11731783	0.86[JPT][hapmap]
rs11735827	0.88[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.87[LWK][hapmap];0.96[MKK][hapmap];0.83[TSI][hapmap];0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17021775	0.89[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17021818	0.88[ASW][hapmap];0.88[GIH][hapmap];0.86[JPT][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17336470	0.86[JPT][hapmap]
rs28579984	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28612590	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28690414	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28717041	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3792665	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805265	0.88[ASW][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3805282	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55858829	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6840774	0.86[JPT][hapmap];0.83[AMR][1000 genomes]
rs6841895	0.91[AMR][1000 genomes]
rs6843496	1.00[CEU][hapmap]
rs9307143	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9307145	0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9996560	1.00[CEU][hapmap]
rs9997947	0.86[JPT][hapmap]

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	nsv993495	chr4:94992315-95482578	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv594901	chr4:95254730-95493246	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95422400-95482800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr4:95457400-95485400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr4:95458000-95480400	Weak transcription	Brain Hippocampus Middle	brain
4	chr4:95458200-95483000	Weak transcription	Duodenum Mucosa	Duodenum
5	chr4:95458200-95488800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:95459000-95473000	Weak transcription	Fetal Kidney	kidney
7	chr4:95459000-95480400	Weak transcription	Adipose Nuclei	Adipose
8	chr4:95459600-95471000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr4:95459800-95481200	Weak transcription	Aorta	Aorta
10	chr4:95460200-95472400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr4:95463000-95480400	Weak transcription	Right Ventricle	heart
12	chr4:95463000-95487800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr4:95463200-95481200	Weak transcription	Left Ventricle	heart
14	chr4:95466000-95474800	Weak transcription	Psoas Muscle	Psoas
15	chr4:95466000-95475000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr4:95467000-95471800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr4:95467600-95479400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr4:95468200-95470400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr4:95468400-95470400	Enhancers	HepG2	liver
20	chr4:95468400-95470800	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr4:95468400-95471000	Enhancers	Hela-S3	cervix
22	chr4:95468600-95470400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr4:95468600-95470800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr4:95468600-95470800	Genic enhancers	HSMM	muscle
25	chr4:95468600-95471000	Enhancers	Placenta Amnion	Placenta Amnion
26	chr4:95468800-95470400	Enhancers	NHDF-Ad	bronchial
27	chr4:95468800-95470600	Flanking Active TSS	A549	lung
28	chr4:95468800-95470800	Weak transcription	Right Atrium	heart
29	chr4:95468800-95472600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr4:95469000-95470400	Enhancers	NHLF	lung
31	chr4:95469000-95470800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr4:95469000-95472600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr4:95469200-95470400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
34	chr4:95469200-95470800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr4:95469400-95470600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr4:95469600-95470400	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr4:95469600-95470400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr4:95469600-95470600	Enhancers	Colon Smooth Muscle	Colon
39	chr4:95469600-95471000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr4:95469800-95470400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr4:95469800-95470400	Weak transcription	Liver	Liver
42	chr4:95469800-95470400	Enhancers	Fetal Intestine Large	intestine
43	chr4:95469800-95470400	Enhancers	Ovary	ovary
44	chr4:95469800-95470400	Transcr. at gene 5' and 3'	K562	blood
45	chr4:95469800-95470600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr4:95469800-95470600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr4:95469800-95470600	Enhancers	Small Intestine	intestine
48	chr4:95469800-95471000	Enhancers	Stomach Mucosa	stomach
49	chr4:95469800-95476600	Enhancers	Fetal Heart	heart
50	chr4:95470000-95470400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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