Variant report

Variant	rs10867877
Chromosome Location	chr9:72289649-72289650
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr9:72288743-72289751	U2OS	brain:	n/a	n/a
2	KAP1	chr9:72288861-72289748	HEK293	kidney:	n/a	n/a
3	NFIC	chr9:72289646-72291059	ECC-1	luminal epithelium:	n/a	chr9:72290674-72290690 chr9:72290673-72290690
4	GATA3	chr9:72289500-72289986	MCF-7	breast:	n/a	n/a
5	ZNF217	chr9:72289649-72289895	MCF-7	breast:	n/a	n/a
6	GATA3	chr9:72289344-72290254	MCF-7	breast:	n/a	n/a
7	GATA3	chr9:72289434-72290593	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72259190..72261738-chr9:72289104..72291957,2	MCF-7	breast:

Variant related genes	Relation type
APBA1	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10780551	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10867853	0.90[CEU][hapmap];0.92[EUR][1000 genomes]
rs10867859	0.90[CEU][hapmap];0.92[EUR][1000 genomes]
rs1330337	1.00[CHB][hapmap]
rs2309517	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4629937	0.83[CEU][hapmap];0.90[EUR][1000 genomes]
rs4744576	0.92[EUR][1000 genomes]
rs4744928	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4744932	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6559671	0.90[CEU][hapmap];0.91[EUR][1000 genomes]

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	nsv471309	chr9:72273898-72410323	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72288400-72289800	Weak transcription	HSMMtube	muscle
2	chr9:72288400-72289800	Weak transcription	NHLF	lung
3	chr9:72288400-72290000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr9:72288400-72290200	Weak transcription	HSMM	muscle
5	chr9:72288400-72290400	Enhancers	Primary hematopoietic stem cells	blood
6	chr9:72288400-72290400	Enhancers	Primary T helper cells PMA-I stimulated	--
7	chr9:72288400-72290400	Enhancers	Fetal Muscle Leg	muscle
8	chr9:72288400-72290400	Enhancers	HUVEC	blood vessel
9	chr9:72288400-72290600	Enhancers	Primary T cells from cord blood	blood
10	chr9:72288400-72290600	Enhancers	Fetal Stomach	stomach
11	chr9:72288400-72290800	Enhancers	Placenta	Placenta
12	chr9:72288400-72290800	Enhancers	NHDF-Ad	bronchial
13	chr9:72288400-72291000	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr9:72288400-72291000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:72288400-72291000	Enhancers	HMEC	breast
16	chr9:72288600-72290200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr9:72288600-72290800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:72288600-72290800	Enhancers	Osteobl	bone
19	chr9:72288600-72291000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:72288800-72290000	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr9:72289000-72289800	Enhancers	ES-I3 Cell Line	embryonic stem cell
22	chr9:72289000-72289800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:72289000-72290400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:72289000-72293600	Weak transcription	Fetal Brain Male	brain
25	chr9:72289200-72289800	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr9:72289200-72289800	Flanking Active TSS	NHEK	skin
27	chr9:72289200-72290200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr9:72289200-72290800	Enhancers	NH-A	brain
29	chr9:72289200-72291000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr9:72289200-72291000	Enhancers	Muscle Satellite Cultured Cells	--
31	chr9:72289200-72292000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr9:72289400-72289800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr9:72289400-72289800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr9:72289400-72290000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:72289400-72290400	Enhancers	Fetal Kidney	kidney
36	chr9:72289400-72290600	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr9:72289600-72289800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr9:72289600-72289800	Enhancers	Colon Smooth Muscle	Colon
39	chr9:72289600-72289800	Flanking Active TSS	Fetal Lung	lung
40	chr9:72289600-72290000	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr9:72289600-72290800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr9:72289600-72290800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr9:72289600-72290800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links