Variant report

Variant	rs1890908
Chromosome Location	chr14:64519035-64519036
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:64517201..64519341-chr14:64582124..64585042,2	MCF-7	breast:
2	chr14:64514699..64516499-chr14:64517997..64519525,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10135588	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10140978	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10146667	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10151127	0.91[CHD][hapmap]
rs11622858	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11844088	0.82[ASN][1000 genomes]
rs11844628	0.82[ASN][1000 genomes]
rs1255948	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1255950	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1255951	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1255952	0.89[ASW][hapmap];1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1255955	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1255959	0.82[CHB][hapmap]
rs1255960	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1255961	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1255964	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1255965	1.00[CHB][hapmap];0.96[CHD][hapmap];0.84[GIH][hapmap];0.84[ASN][1000 genomes]
rs1255968	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1255973	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12586503	0.82[ASN][1000 genomes]
rs1262241	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12883728	0.82[CEU][hapmap]
rs12887573	0.82[CEU][hapmap]
rs12894671	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17101419	0.82[CEU][hapmap]
rs1890907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1959033	0.82[CEU][hapmap]
rs2153477	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2153478	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2153481	0.87[ASN][1000 genomes]
rs2781377	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes]
rs2781378	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35103832	0.82[CEU][hapmap]
rs3866737	0.82[ASN][1000 genomes]
rs4027405	0.91[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4899131	0.82[ASN][1000 genomes]
rs6573542	0.82[ASN][1000 genomes]
rs6573544	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7146859	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7147157	0.82[ASN][1000 genomes]
rs7150982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7153376	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7157993	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8007972	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915909	chr14:63620440-64560369	Active TSS Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv902019	chr14:64395569-64882380	Enhancers Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv456326	chr14:64420413-64754361	Strong transcription Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv564905	chr14:64420413-64754361	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:64457000-64519200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr14:64466600-64593200	Weak transcription	Colon Smooth Muscle	Colon
3	chr14:64468800-64527200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr14:64475200-64527200	Weak transcription	Fetal Heart	heart
5	chr14:64479200-64526200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr14:64481400-64574000	Weak transcription	Stomach Mucosa	stomach
7	chr14:64489200-64526600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr14:64489400-64568600	Weak transcription	Small Intestine	intestine
9	chr14:64491200-64565200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr14:64492200-64547400	Weak transcription	Colonic Mucosa	Colon
11	chr14:64499000-64538800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr14:64510600-64527200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr14:64510800-64526400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr14:64511000-64526200	Weak transcription	Pancreas	Pancrea
15	chr14:64511200-64527000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr14:64512000-64524200	Strong transcription	Dnd41	blood
17	chr14:64512400-64524400	Strong transcription	Placenta	Placenta
18	chr14:64512400-64527600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr14:64512600-64524200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr14:64512800-64521400	Strong transcription	Cortex derived primary cultured neurospheres	brain
21	chr14:64513800-64520200	Weak transcription	NHEK	skin
22	chr14:64513800-64522000	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr14:64513800-64526400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr14:64514000-64520200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr14:64514000-64526200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr14:64514200-64526400	Weak transcription	Spleen	Spleen
27	chr14:64514600-64526400	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr14:64514600-64527200	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr14:64515000-64519800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr14:64515000-64527600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr14:64515200-64520000	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr14:64515400-64519400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr14:64515600-64522600	Weak transcription	Fetal Intestine Small	intestine
34	chr14:64515600-64526800	Weak transcription	Hela-S3	cervix
35	chr14:64516600-64541400	Weak transcription	HSMM	muscle
36	chr14:64517000-64519600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr14:64517000-64520200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr14:64518000-64519200	Strong transcription	HUES48 Cell Line	embryonic stem cell
39	chr14:64518000-64521600	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr14:64518000-64521600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr14:64518000-64527400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr14:64518200-64519200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr14:64518200-64519400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr14:64518200-64519400	Strong transcription	Fetal Intestine Large	intestine
45	chr14:64518200-64519400	Strong transcription	Fetal Thymus	thymus
46	chr14:64518200-64520600	Strong transcription	Rectal Mucosa Donor 31	rectum
47	chr14:64518200-64520600	Strong transcription	GM12878-XiMat	blood
48	chr14:64518200-64523000	Strong transcription	Fetal Stomach	stomach
49	chr14:64518400-64519200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr14:64518400-64519200	ZNF genes & repeats	Ovary	ovary

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