Variant report

Variant	rs6853785
Chromosome Location	chr4:142061946-142061947
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10008705	0.82[CHB][hapmap]
rs10016770	1.00[ASN][1000 genomes]
rs10028355	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10029478	0.88[CHB][hapmap];0.85[CHD][hapmap];0.89[ASN][1000 genomes]
rs1027815	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10519584	0.80[GIH][hapmap]
rs10519586	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12509440	0.88[CHB][hapmap];0.83[GIH][hapmap];0.81[ASN][1000 genomes]
rs13435125	0.88[CHB][hapmap];0.89[ASN][1000 genomes]
rs1395668	0.81[ASN][1000 genomes]
rs1395669	0.81[ASN][1000 genomes]
rs1507178	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs187139	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1873370	0.82[CHB][hapmap];0.81[ASN][1000 genomes]
rs189568	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2033612	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2321862	0.81[ASN][1000 genomes]
rs28417061	0.89[ASN][1000 genomes]
rs28457672	0.89[ASN][1000 genomes]
rs28628800	0.89[ASN][1000 genomes]
rs354939	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs354941	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3913899	0.83[GIH][hapmap]
rs4123363	0.98[EUR][1000 genomes]
rs4267811	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs4386678	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs4613644	0.88[CHB][hapmap];0.91[ASN][1000 genomes]
rs4629541	0.88[CHB][hapmap];0.83[GIH][hapmap];0.81[ASN][1000 genomes]
rs4956513	0.81[ASN][1000 genomes]
rs4956514	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs4956515	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4956516	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4956517	0.88[CHB][hapmap];0.85[CHD][hapmap];0.97[GIH][hapmap];0.97[TSI][hapmap];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4956518	0.96[GIH][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62324904	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62324905	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6537030	0.88[CHB][hapmap];0.83[GIH][hapmap];0.81[ASN][1000 genomes]
rs6813119	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs6817313	0.81[ASN][1000 genomes]
rs6826231	0.81[ASN][1000 genomes]
rs6831578	0.81[ASN][1000 genomes]
rs6835953	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72724492	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs756170	0.86[CHB][hapmap];0.91[ASN][1000 genomes]
rs7658695	0.81[ASN][1000 genomes]
rs7669929	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7683490	0.83[GIH][hapmap]
rs9790672	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs9790673	0.88[CHB][hapmap];0.81[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	nsv880167	chr4:141616979-142092124	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv880170	chr4:142046828-142137165	Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv526770	chr4:142048547-142061946	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142056000-142062000	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:142056600-142063600	Weak transcription	Left Ventricle	heart
3	chr4:142056800-142062000	Weak transcription	Fetal Heart	heart
4	chr4:142060000-142063000	Enhancers	Fetal Muscle Leg	muscle
5	chr4:142061200-142063400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr4:142061200-142065200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr4:142061400-142062200	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr4:142061400-142062600	Enhancers	Pancreatic Islets	Pancreatic Islet
9	chr4:142061600-142062400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr4:142061800-142062200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr4:142061800-142062200	Enhancers	Primary hematopoietic stem cells	blood
12	chr4:142061800-142062200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr4:142061800-142062200	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr4:142061800-142062200	Enhancers	Fetal Stomach	stomach
15	chr4:142061800-142062400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr4:142061800-142062400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr4:142061800-142062400	Enhancers	HSMM	muscle
18	chr4:142061800-142062600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links