Variant report

Variant	rs10978775
Chromosome Location	chr9:110021726-110021727
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110015966..110018595-chr9:110020108..110022273,3	MCF-7	breast:
2	chr9:110021248..110023658-chr9:110046181..110048340,2	K562	blood:
3	chr9:110021549..110024530-chr9:110031690..110034147,2	MCF-7	breast:
4	chr9:110007992..110013194-chr9:110021107..110025881,5	MCF-7	breast:
5	chr9:110021032..110023010-chr9:110046369..110047881,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119318	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10113916	0.86[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10119641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10122970	1.00[ASN][1000 genomes]
rs10481632	1.00[CHB][hapmap];0.88[JPT][hapmap];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10521083	0.84[CHB][hapmap]
rs10732368	0.84[CHB][hapmap]
rs10739232	0.88[CHB][hapmap]
rs10739234	0.84[CHB][hapmap]
rs10739236	0.85[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10739238	0.84[CHB][hapmap]
rs10759219	0.89[CHB][hapmap]
rs10759222	0.84[CHB][hapmap]
rs10816473	0.80[AMR][1000 genomes]
rs10816474	0.93[AMR][1000 genomes]
rs10816477	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10816480	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10816485	1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10816490	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10816491	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10978767	0.94[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes]
rs10978769	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs10978770	0.89[CHB][hapmap]
rs10978776	1.00[ASN][1000 genomes]
rs10978777	1.00[ASN][1000 genomes]
rs10978791	1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12342066	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12345455	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12555417	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1323808	0.84[CHB][hapmap]
rs1519049	0.82[AMR][1000 genomes]
rs1519050	0.85[AMR][1000 genomes]
rs1535765	0.84[CHB][hapmap]
rs1535766	0.89[CHB][hapmap]
rs1805329	0.86[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1805332	0.84[CHB][hapmap]
rs1805334	0.84[CHB][hapmap]
rs1886134	0.84[CHB][hapmap]
rs2005143	0.95[ASN][1000 genomes]
rs2147072	0.84[CHB][hapmap]
rs2417776	1.00[ASN][1000 genomes]
rs2417784	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2417785	0.84[CHB][hapmap]
rs2808362	0.85[AMR][1000 genomes]
rs2808363	0.85[AMR][1000 genomes]
rs2808365	0.85[AMR][1000 genomes]
rs28534368	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28769087	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28848858	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4278207	0.84[CHB][hapmap]
rs4481670	0.83[CHB][hapmap]
rs4978849	0.83[CHB][hapmap]
rs61701375	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs698475	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7029997	0.84[CHB][hapmap]
rs7030169	0.84[CHB][hapmap]
rs7031906	0.84[CHB][hapmap]
rs7035611	0.84[CHB][hapmap]
rs7036284	1.00[ASN][1000 genomes]
rs7038737	0.83[CHB][hapmap]
rs7040217	0.92[ASN][1000 genomes]
rs7041137	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs7041497	0.84[CHB][hapmap]
rs7046950	0.84[CHB][hapmap]
rs7852295	0.89[CHB][hapmap]
rs7861304	0.85[AMR][1000 genomes]
rs7866312	0.89[CHB][hapmap]
rs7866353	0.89[CHB][hapmap]
rs7866797	0.89[CHB][hapmap]
rs7867544	0.94[CHB][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7873745	0.99[ASN][1000 genomes]
rs817836	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs817838	0.87[ASN][1000 genomes]
rs817839	0.87[ASN][1000 genomes]
rs817840	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs817841	1.00[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs817843	0.87[ASN][1000 genomes]
rs817844	0.87[ASN][1000 genomes]
rs817845	0.87[ASN][1000 genomes]
rs817847	0.81[ASN][1000 genomes]
rs942291	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs942293	0.84[CHB][hapmap]
rs9632893	0.94[CHB][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9969728	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv508560	chr9:110006490-110060539	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	esv3508199	chr9:110017856-110022181	Enhancers Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110007000-110022600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:110012400-110022600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:110014800-110022800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:110015400-110022600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:110017200-110022600	Weak transcription	HSMMtube	muscle
6	chr9:110018200-110022400	Weak transcription	HepG2	liver
7	chr9:110020800-110022600	Weak transcription	NHDF-Ad	bronchial
8	chr9:110021000-110023800	Enhancers	Liver	Liver
9	chr9:110021400-110022600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr9:110021400-110024000	Enhancers	Primary B cells from peripheral blood	blood
11	chr9:110021600-110022600	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links