Variant report

Variant	rs7089302
Chromosome Location	chr10:214721-214722
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:180810..183645-chr10:213467..216539,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000015171	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10508201	0.91[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs10736951	0.85[JPT][hapmap]
rs10903692	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10903844	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs11250289	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11250292	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11250419	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11250488	0.99[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11250528	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11250529	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11250575	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11250790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11250797	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11251173	0.90[EUR][1000 genomes]
rs11592007	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11592027	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11594308	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11599450	0.88[EUR][1000 genomes]
rs12357593	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs12360337	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1476130	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs17221197	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17221225	0.87[CEU][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17221239	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17221260	1.00[CHB][hapmap];0.84[JPT][hapmap]
rs2379049	0.85[EUR][1000 genomes]
rs2436030	0.82[EUR][1000 genomes]
rs2448364	0.88[CEU][hapmap];0.86[JPT][hapmap];0.90[EUR][1000 genomes]
rs2448366	0.88[CEU][hapmap];0.86[JPT][hapmap];0.88[EUR][1000 genomes]
rs2448371	0.88[EUR][1000 genomes]
rs2448373	0.87[EUR][1000 genomes]
rs2448380	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs2448381	0.85[EUR][1000 genomes]
rs2448384	0.88[CEU][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs2496275	0.88[CEU][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs2496278	0.80[CEU][hapmap];0.83[EUR][1000 genomes]
rs3131995	0.81[EUR][1000 genomes]
rs34926441	0.81[EUR][1000 genomes]
rs4275539	0.81[EUR][1000 genomes]
rs4369322	0.81[EUR][1000 genomes]
rs56217646	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61836334	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61836335	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61836338	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7090608	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7896421	0.92[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]
rs7909028	0.80[EUR][1000 genomes]
rs7909116	0.81[EUR][1000 genomes]
rs7912326	0.92[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7919162	0.88[CEU][hapmap]
rs7919436	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs9419432	0.90[EUR][1000 genomes]
rs9419493	0.81[EUR][1000 genomes]
rs9419496	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531919	chr10:60001-668649	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1040332	chr10:72797-244561	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1044775	chr10:72797-250662	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1047868	chr10:72797-259003	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1048232	chr10:72797-274675	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:190400-215200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr10:194200-228200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr10:196800-215000	Weak transcription	Fetal Intestine Large	intestine
4	chr10:197800-219800	Weak transcription	HUVEC	blood vessel
5	chr10:200000-228000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:200400-226800	Weak transcription	HSMM	muscle
7	chr10:200400-230400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:207200-226800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr10:208000-214800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr10:208200-293000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:209800-215800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr10:209800-225800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr10:209800-226600	Weak transcription	Liver	Liver
14	chr10:210600-219200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr10:210800-224800	Weak transcription	Ovary	ovary
16	chr10:211800-214800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr10:212800-226400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr10:213000-214800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr10:213200-215000	Weak transcription	Adipose Nuclei	Adipose
20	chr10:213800-226000	Weak transcription	Dnd41	blood
21	chr10:214200-215400	ZNF genes & repeats	Fetal Muscle Trunk	muscle
22	chr10:214600-215000	Weak transcription	Psoas Muscle	Psoas
23	chr10:214600-215200	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr10:214600-215200	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links