Variant report

Variant	rs9945445
Chromosome Location	chr18:13327299-13327300
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:13215892..13216540-chr18:13326947..13327812,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CEP192-4	chr18:13327065-13329979	NONHSAT058426

Variant related genes	Relation type
ENSG00000267239	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11080643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11873077	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs11875285	1.00[EUR][1000 genomes]
rs11875382	1.00[EUR][1000 genomes]
rs11875398	1.00[EUR][1000 genomes]
rs11875421	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11877708	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12232719	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12232739	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12456449	1.00[CEU][hapmap]
rs16940477	1.00[CEU][hapmap]
rs1961389	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28433080	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7230254	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7233930	1.00[CEU][hapmap]
rs7235364	1.00[CEU][hapmap]
rs8085411	1.00[EUR][1000 genomes]
rs8085540	1.00[CEU][hapmap];0.80[CHB][hapmap];1.00[EUR][1000 genomes]
rs8085978	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8086741	0.80[CHB][hapmap]
rs8089252	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8092586	1.00[EUR][1000 genomes]
rs8092824	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8099239	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8099805	0.80[CHB][hapmap]
rs9950249	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9957082	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9957817	1.00[EUR][1000 genomes]
rs9960178	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[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	nsv531246	chr18:13298774-14082028	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13317400-13331200	Weak transcription	Primary T cells from cord blood	blood
2	chr18:13320400-13338200	Weak transcription	Small Intestine	intestine
3	chr18:13321200-13329600	Weak transcription	Fetal Heart	heart
4	chr18:13321200-13336000	Weak transcription	Left Ventricle	heart
5	chr18:13321400-13328000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr18:13323400-13332600	Weak transcription	Brain Anterior Caudate	brain
7	chr18:13323400-13335800	Weak transcription	Aorta	Aorta
8	chr18:13323600-13329600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr18:13323600-13330800	Weak transcription	Dnd41	blood
10	chr18:13324600-13327400	Genic enhancers	Thymus	Thymus
11	chr18:13324600-13327800	Genic enhancers	Fetal Thymus	thymus
12	chr18:13325600-13327800	Weak transcription	Fetal Stomach	stomach
13	chr18:13325600-13328000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr18:13325600-13328000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr18:13326200-13328400	Enhancers	Fetal Brain Female	brain
16	chr18:13326200-13331200	Weak transcription	Psoas Muscle	Psoas
17	chr18:13327000-13327400	Enhancers	Primary B cells from peripheral blood	blood
18	chr18:13327000-13327400	Enhancers	Right Atrium	heart
19	chr18:13327200-13327600	Enhancers	Fetal Muscle Leg	muscle
20	chr18:13327200-13327800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr18:13327200-13328400	Enhancers	Fetal Brain Male	brain

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