Variant report

Variant	rs6673434
Chromosome Location	chr1:63173105-63173106
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:63152387..63154726-chr1:63170409..63173297,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000235545	Chromatin interaction
ENSG00000116641	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10889362	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1168110	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1168111	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17123784	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1887587	0.82[ASN][1000 genomes]
rs2094491	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2149117	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2182867	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4244157	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4244158	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4542244	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4915623	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6587983	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6657562	0.86[AFR][1000 genomes]
rs72915162	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs74076913	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7416564	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7514389	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7514753	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7528933	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7536775	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7538892	0.93[ASN][1000 genomes]
rs943699	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9787152	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1014376	chr1:62976472-63181359	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:63157600-63180800	Weak transcription	Fetal Brain Male	brain
2	chr1:63163600-63186600	Weak transcription	HepG2	liver
3	chr1:63170600-63173600	Weak transcription	Colonic Mucosa	Colon
4	chr1:63171200-63174600	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr1:63171200-63186800	Weak transcription	Fetal Stomach	stomach
6	chr1:63171400-63173200	Weak transcription	Stomach Mucosa	stomach
7	chr1:63171400-63186400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:63172000-63174000	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr1:63172000-63186600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr1:63172000-63186600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr1:63172600-63173800	Enhancers	Pancreas	Pancrea
12	chr1:63173000-63173600	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr1:63173000-63173600	Active TSS	Rectal Mucosa Donor 29	rectum
14	chr1:63173000-63174000	Enhancers	Fetal Intestine Large	intestine
15	chr1:63173000-63174000	Enhancers	Fetal Intestine Small	intestine
16	chr1:63173000-63174000	Enhancers	Fetal Kidney	kidney
17	chr1:63173000-63174200	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links