Variant report

Variant	rs3805274
Chromosome Location	chr4:95482820-95482821
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	chr4:95372517..95374516-chr4:95482223..95483789,2	K562	blood:
2	chr4:95472261..95474248-chr4:95480587..95483073,2	K562	blood:

Variant related genes	Relation type
ENSG00000163110	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10000208	0.86[EUR][1000 genomes]
rs10025074	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10213504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11726587	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs11731606	0.84[CEU][hapmap];1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs12498904	0.87[ASN][1000 genomes]
rs17336353	0.82[CHB][hapmap]
rs2452581	1.00[ASN][1000 genomes]
rs2452593	1.00[CHB][hapmap];0.81[CHD][hapmap];0.88[JPT][hapmap];0.85[MKK][hapmap];0.85[TSI][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2452594	0.82[CHB][hapmap]
rs2510766	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2510771	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2639795	0.85[CEU][hapmap];0.83[TSI][hapmap]
rs28416638	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3792664	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs3805271	0.89[ASN][1000 genomes]
rs3805272	0.89[ASN][1000 genomes]
rs3805283	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805286	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs3828518	0.82[CHB][hapmap]
rs6812098	1.00[CEU][hapmap];0.83[MKK][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes]
rs6816687	0.82[CHB][hapmap]
rs6830074	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs699861	0.83[TSI][hapmap]
rs7656545	0.82[CHB][hapmap]
rs7679284	0.82[CHB][hapmap]
rs7683990	0.87[ASN][1000 genomes]
rs9307144	0.80[AMR][1000 genomes];0.89[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	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:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95457400-95485400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr4:95458200-95483000	Weak transcription	Duodenum Mucosa	Duodenum
3	chr4:95458200-95488800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr4:95463000-95487800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:95470000-95489200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr4:95470400-95484800	Weak transcription	Fetal Intestine Large	intestine
7	chr4:95470600-95483600	Weak transcription	Fetal Intestine Small	intestine
8	chr4:95470600-95489200	Weak transcription	Small Intestine	intestine
9	chr4:95479200-95484000	Enhancers	Fetal Heart	heart
10	chr4:95479400-95483400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:95479400-95484000	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr4:95479400-95484000	Enhancers	NH-A	brain
13	chr4:95479400-95484600	Enhancers	Osteobl	bone
14	chr4:95479800-95491400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr4:95479800-95496800	Weak transcription	Fetal Muscle Leg	muscle
16	chr4:95480200-95483800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr4:95480200-95483800	Enhancers	HMEC	breast
18	chr4:95480200-95484000	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr4:95480400-95483400	Enhancers	NHLF	lung
20	chr4:95480600-95483800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr4:95480600-95488000	Enhancers	Liver	Liver
22	chr4:95480800-95483000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr4:95481000-95483600	Enhancers	NHDF-Ad	bronchial
24	chr4:95481000-95484400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr4:95481200-95494600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr4:95481400-95483200	Weak transcription	Right Ventricle	heart
27	chr4:95481400-95484000	Enhancers	HSMMtube	muscle
28	chr4:95481400-95485200	Enhancers	Muscle Satellite Cultured Cells	--
29	chr4:95481400-95496800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr4:95481400-95496800	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr4:95481600-95483600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr4:95481600-95484000	Enhancers	Hela-S3	cervix
33	chr4:95481800-95483000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:95481800-95484600	Enhancers	HSMM	muscle
35	chr4:95482000-95483000	Weak transcription	Gastric	stomach
36	chr4:95482000-95483000	Weak transcription	Ovary	ovary
37	chr4:95482000-95485200	Weak transcription	Aorta	Aorta
38	chr4:95482000-95485400	Weak transcription	Placenta	Placenta
39	chr4:95482200-95483000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr4:95482200-95483200	Flanking Active TSS	HUVEC	blood vessel
41	chr4:95482200-95485200	Weak transcription	Left Ventricle	heart
42	chr4:95482200-95485400	Weak transcription	Psoas Muscle	Psoas
43	chr4:95482400-95483000	Active TSS	Right Atrium	heart
44	chr4:95482400-95483200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr4:95482400-95483200	Enhancers	K562	blood
46	chr4:95482400-95483400	Enhancers	Rectal Smooth Muscle	rectum
47	chr4:95482400-95483800	Enhancers	A549	lung
48	chr4:95482600-95483000	Flanking Active TSS	Adipose Nuclei	Adipose
49	chr4:95482600-95483000	Enhancers	Duodenum Smooth Muscle	Duodenum
50	chr4:95482600-95484000	Enhancers	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links