Variant report

Variant	rs6681178
Chromosome Location	chr1:184732974-184732975
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:184731421..184735754-chr1:184736709..184739725,5	K562	blood:
2	chr1:184731513..184734205-chr1:184752298..184754564,2	MCF-7	breast:
3	chr1:184722694..184725691-chr1:184732009..184735000,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000116406	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10489697	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12067111	0.92[AFR][1000 genomes]
rs12079454	1.00[ASN][1000 genomes]
rs12094196	0.93[AFR][1000 genomes]
rs12096214	0.92[AFR][1000 genomes]
rs16823413	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16823421	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs16823429	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2224092	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35779894	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41535944	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55896922	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs56384325	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56741490	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs58465130	0.90[ASN][1000 genomes]
rs59085958	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs59347366	1.00[ASN][1000 genomes]
rs59862212	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61022402	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61823879	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs61823880	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61823882	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61823885	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61823891	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61823908	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001323	chr1:184525419-185315876	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv535222	chr1:184525419-185315876	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
3	nsv832037	chr1:184568194-184756597	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv917126	chr1:184655366-184902273	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv832048	chr1:184660146-184858802	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:184724800-184742600	Weak transcription	Gastric	stomach
2	chr1:184729600-184733600	Weak transcription	HepG2	liver
3	chr1:184730000-184733800	Weak transcription	Pancreas	Pancrea
4	chr1:184731200-184734200	Enhancers	Liver	Liver
5	chr1:184731400-184739800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr1:184731800-184737600	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links