Variant report

Variant	rs2414115
Chromosome Location	chr15:52007868-52007869
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52007487..52009839-chr15:52012657..52014790,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16953082	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16964486	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16964488	1.00[CEU][hapmap]
rs16964505	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16964506	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs16964507	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16964508	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes]
rs16964510	0.82[EUR][1000 genomes]
rs16964518	0.82[EUR][1000 genomes]
rs16964532	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16964555	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16964561	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16964585	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs16964596	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs17705373	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1991267	1.00[JPT][hapmap]
rs2570232	1.00[CEU][hapmap]
rs2593181	1.00[JPT][hapmap]
rs2899478	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3751595	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4499184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775971	1.00[CEU][hapmap]
rs56221158	0.80[EUR][1000 genomes]
rs7165594	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7167759	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7174616	1.00[CEU][hapmap]
rs7175121	1.00[CEU][hapmap]
rs7342575	1.00[CEU][hapmap]
rs8036648	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1035967	chr15:51949866-52008736	Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51974200-52018800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:51974600-52016400	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr15:51975600-52017200	Weak transcription	Fetal Brain Male	brain
4	chr15:51983000-52013200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr15:51984800-52018600	Weak transcription	Brain Hippocampus Middle	brain
6	chr15:51990000-52016800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:51991400-52018800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr15:51992200-52018800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr15:51992600-52008400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:51993600-52016800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:51995400-52013200	Weak transcription	Brain Substantia Nigra	brain
12	chr15:51999800-52018200	Weak transcription	Fetal Stomach	stomach
13	chr15:52000000-52013800	Weak transcription	Colon Smooth Muscle	Colon
14	chr15:52000800-52024000	Weak transcription	Gastric	stomach
15	chr15:52001000-52018600	Weak transcription	Pancreas	Pancrea
16	chr15:52001200-52013000	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:52001600-52012000	Weak transcription	Primary B cells from cord blood	blood
18	chr15:52002400-52013600	Strong transcription	Fetal Brain Female	brain
19	chr15:52002800-52016600	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr15:52003400-52013200	Weak transcription	Aorta	Aorta
21	chr15:52004000-52008400	Strong transcription	Brain Inferior Temporal Lobe	brain
22	chr15:52004000-52013400	Strong transcription	Brain Germinal Matrix	brain
23	chr15:52004400-52009800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr15:52004400-52016400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:52004800-52012600	Weak transcription	Primary T cells from cord blood	blood
26	chr15:52004800-52018600	Weak transcription	Spleen	Spleen
27	chr15:52005200-52009000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr15:52006200-52013000	Weak transcription	Esophagus	oesophagus
29	chr15:52006400-52013800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr15:52006400-52018400	Weak transcription	Fetal Muscle Leg	muscle
31	chr15:52006600-52012000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:52006800-52013400	Weak transcription	K562	blood
33	chr15:52007000-52023400	Weak transcription	Brain Anterior Caudate	brain
34	chr15:52007200-52008000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:52007400-52008400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:52007400-52009000	Strong transcription	Brain Angular Gyrus	brain
37	chr15:52007400-52009200	Enhancers	Fetal Intestine Small	intestine
38	chr15:52007400-52013000	Weak transcription	Dnd41	blood
39	chr15:52007400-52013400	Enhancers	Fetal Intestine Large	intestine
40	chr15:52007600-52008400	Enhancers	Duodenum Mucosa	Duodenum
41	chr15:52007600-52013400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:52007600-52016800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr15:52007800-52010800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr15:52007800-52016800	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr15:52007800-52018200	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links