Variant report

Variant	rs1045642
Chromosome Location	chr7:87138645-87138646
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:87138236..87139236-chr9:139980978..139981565,3	MCF-7	breast:
2	chr7:87137223..87139842-chr7:87141134..87143176,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000268996	Chromatin interaction
ENSG00000177239	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1002204	0.82[CEU][hapmap];0.83[CHB][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1882478	0.82[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap]
rs2235048	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4437575	1.00[CEU][hapmap];0.83[TSI][hapmap];0.92[EUR][1000 genomes]
rs6949448	0.82[CHB][hapmap];0.83[CHD][hapmap];0.81[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv888677	chr7:86802025-87781111	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
4	nsv464622	chr7:86832603-87541248	Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv607725	chr7:86832603-87541248	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	esv1828294	chr7:86857553-87147397	Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv1026153	chr7:86905796-87258822	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
8	nsv464623	chr7:87040629-87139316	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv607726	chr7:87040629-87139316	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv1015862	chr7:87075394-88049798	Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:87132600-87151400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr7:87132800-87153400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr7:87133400-87164400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr7:87133600-87149600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr7:87134200-87139000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr7:87134400-87150200	Strong transcription	Primary T cells from cord blood	blood
7	chr7:87134800-87144800	Strong transcription	Placenta	Placenta
8	chr7:87135400-87145200	Weak transcription	Spleen	Spleen
9	chr7:87135400-87198000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr7:87136200-87140200	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr7:87136600-87139400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr7:87136800-87139000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr7:87137000-87139400	Strong transcription	Primary hematopoietic stem cells	blood
14	chr7:87137200-87140000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr7:87137200-87142000	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr7:87137200-87144000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr7:87137200-87147400	Strong transcription	Liver	Liver
18	chr7:87137800-87138800	Genic enhancers	Primary B cells from peripheral blood	blood
19	chr7:87137800-87138800	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr7:87138000-87138800	Strong transcription	Fetal Intestine Large	intestine
21	chr7:87138000-87141400	Strong transcription	HepG2	liver
22	chr7:87138200-87138800	Enhancers	Primary B cells from cord blood	blood
23	chr7:87138200-87138800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr7:87138400-87138800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr7:87138400-87173400	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr7:87138600-87138800	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr7:87138600-87139600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links