Variant report

Variant	rs9960178
Chromosome Location	chr18:13363535-13363536
allele	A/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	chr18:13361048..13363977-chr18:13367338..13370416,3	MCF-7	breast:
2	chr18:13359242..13361866-chr18:13361991..13364935,2	MCF-7	breast:

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];0.89[CHB][hapmap];0.94[YRI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11873077	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11875285	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11875382	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11875398	1.00[EUR][1000 genomes]
rs11875421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11877708	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12232719	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12232739	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12456449	1.00[CEU][hapmap]
rs16940477	1.00[CEU][hapmap]
rs1961389	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28433080	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230254	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7233930	1.00[CEU][hapmap]
rs7235364	1.00[CEU][hapmap]
rs8085411	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8085540	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8085978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8086741	0.89[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs8089252	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8092586	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8092824	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8099239	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8099805	0.89[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs9945445	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]
rs9950249	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9957082	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9957817	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[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:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13351800-13374800	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr18:13354200-13371800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr18:13354200-13372000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr18:13354400-13371200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr18:13355000-13374200	Weak transcription	Dnd41	blood
6	chr18:13356400-13379200	Weak transcription	Aorta	Aorta
7	chr18:13359400-13379400	Weak transcription	Psoas Muscle	Psoas
8	chr18:13359800-13364400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr18:13360000-13364800	Weak transcription	Spleen	Spleen
10	chr18:13360000-13366600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr18:13360200-13366800	Weak transcription	Brain Substantia Nigra	brain
12	chr18:13361600-13365800	Enhancers	Fetal Brain Male	brain
13	chr18:13361600-13369400	Weak transcription	Pancreas	Pancrea
14	chr18:13361800-13363600	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr18:13361800-13364800	Weak transcription	Fetal Brain Female	brain
16	chr18:13362000-13367200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr18:13362000-13374600	Weak transcription	Fetal Muscle Leg	muscle
18	chr18:13362400-13364800	Weak transcription	Left Ventricle	heart
19	chr18:13362600-13364600	Weak transcription	Right Ventricle	heart
20	chr18:13362600-13364800	Weak transcription	Brain Anterior Caudate	brain
21	chr18:13362800-13363600	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr18:13362800-13363600	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr18:13363000-13364200	Weak transcription	Fetal Thymus	thymus
24	chr18:13363200-13364400	Weak transcription	Thymus	Thymus
25	chr18:13363200-13367200	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr18:13363200-13369800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr18:13363400-13363600	Enhancers	Fetal Heart	heart
28	chr18:13363400-13363600	Enhancers	Fetal Stomach	stomach
29	chr18:13363400-13363600	Enhancers	Rectal Smooth Muscle	rectum
30	chr18:13363400-13363600	Enhancers	NH-A	brain
31	chr18:13363400-13364800	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links