Variant report

Variant	rs17705373
Chromosome Location	chr15:52013706-52013707
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52002992..52006343-chr15:52011753..52015104,3	K562	blood:
2	chr15:52013584..52016377-chr15:52029402..52031450,3	MCF-7	breast:
3	chr15:52007487..52009839-chr15:52012657..52014790,2	MCF-7	breast:
4	chr15:52012107..52014032-chr15:52023388..52025681,2	K562	blood:
5	chr15:52013040..52016397-chr15:52016962..52020800,6	K562	blood:

Variant related genes	Relation type
ENSG00000140280	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1350173	0.89[EUR][1000 genomes]
rs16953082	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs16964486	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964505	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964506	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964507	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964508	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs16964510	0.88[EUR][1000 genomes]
rs16964518	0.88[EUR][1000 genomes]
rs16964528	0.91[EUR][1000 genomes]
rs16964532	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs16964555	1.00[CEU][hapmap]
rs16964561	1.00[CEU][hapmap]
rs16964585	1.00[CEU][hapmap]
rs16964596	1.00[CEU][hapmap]
rs17648915	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs17648927	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs17705437	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs17705685	1.00[YRI][hapmap]
rs2414115	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2570232	1.00[CEU][hapmap]
rs2899478	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs3751595	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3794529	0.95[EUR][1000 genomes]
rs3794533	1.00[YRI][hapmap]
rs4775971	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs56221158	0.86[EUR][1000 genomes]
rs60398357	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7165594	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7166954	0.98[EUR][1000 genomes]
rs7167759	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7168775	1.00[YRI][hapmap]
rs7174616	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7175121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7179971	0.98[EUR][1000 genomes]
rs7180093	0.98[EUR][1000 genomes]
rs73405349	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73405355	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73405356	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73405364	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73405388	0.89[EUR][1000 genomes]
rs7342575	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs74015721	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74015757	0.93[EUR][1000 genomes]
rs74015761	0.93[EUR][1000 genomes]
rs7496198	0.85[EUR][1000 genomes]
rs8034090	1.00[YRI][hapmap]
rs8036648	0.88[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs8038895	1.00[YRI][hapmap]

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	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

No data

Chromatin state (count:100 , 50 per page) page: 1 2

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	chr15:51984800-52018600	Weak transcription	Brain Hippocampus Middle	brain
5	chr15:51990000-52016800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr15:51991400-52018800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr15:51992200-52018800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:51993600-52016800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:51999800-52018200	Weak transcription	Fetal Stomach	stomach
10	chr15:52000000-52013800	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:52000800-52024000	Weak transcription	Gastric	stomach
12	chr15:52001000-52018600	Weak transcription	Pancreas	Pancrea
13	chr15:52002800-52016600	Weak transcription	Pancreatic Islets	Pancreatic Islet
14	chr15:52004400-52016400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:52004800-52018600	Weak transcription	Spleen	Spleen
16	chr15:52006400-52013800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr15:52006400-52018400	Weak transcription	Fetal Muscle Leg	muscle
18	chr15:52007000-52023400	Weak transcription	Brain Anterior Caudate	brain
19	chr15:52007600-52016800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr15:52007800-52016800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr15:52007800-52018200	Weak transcription	NHDF-Ad	bronchial
22	chr15:52008200-52023200	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr15:52008400-52018400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr15:52008400-52023400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr15:52008800-52016600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr15:52009000-52016600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr15:52009600-52014000	Enhancers	Fetal Intestine Small	intestine
28	chr15:52010800-52018400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr15:52010800-52018400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr15:52011000-52017000	Weak transcription	Adipose Nuclei	Adipose
31	chr15:52011200-52018400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:52011200-52018600	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr15:52011400-52014200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr15:52011400-52016600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr15:52011400-52018800	Weak transcription	Brain Cingulate Gyrus	brain
36	chr15:52011400-52023400	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr15:52011600-52018400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr15:52011600-52023400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr15:52011800-52014600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr15:52011800-52018200	Weak transcription	Hela-S3	cervix
41	chr15:52011800-52018200	Weak transcription	HMEC	breast
42	chr15:52012000-52016800	Strong transcription	Primary B cells from cord blood	blood
43	chr15:52012200-52015600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr15:52012400-52014800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr15:52012400-52016600	Strong transcription	Primary T helper cells fromperipheralblood	blood
46	chr15:52012400-52017000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr15:52012400-52017200	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr15:52012400-52024200	Weak transcription	Fetal Lung	lung
49	chr15:52012600-52014600	Strong transcription	Primary T cells from cord blood	blood
50	chr15:52012800-52014200	Strong transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links