Variant report

Variant	rs73652846
Chromosome Location	chr9:22043260-22043261
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	CTCF	chr9:22043120-22043270	AG10803	skin:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:22041859..22044589-chr9:22046205..22047807,2	MCF-7	breast:
2	chr9:22007719..22013279-chr9:22036472..22044819,13	MCF-7	breast:

Variant related genes	Relation type
CDKN2B-AS1	TF binding region
ENSG00000147883	Chromatin interaction
ENSG00000215221	Chromatin interaction
ENSG00000240498	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1333035	0.86[ASN][1000 genomes]
rs16905597	0.87[AFR][1000 genomes]
rs16935753	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17761197	0.83[ASN][1000 genomes]
rs17834131	1.00[ASN][1000 genomes]
rs2069420	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2151279	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2285327	0.82[ASN][1000 genomes]
rs3217980	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3217990	1.00[EUR][1000 genomes]
rs3217994	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3217997	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3217999	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3218003	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3218010	0.83[ASN][1000 genomes]
rs3218021	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3218022	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3218023	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3731205	1.00[EUR][1000 genomes]
rs3808845	0.83[ASN][1000 genomes]
rs3808846	0.83[ASN][1000 genomes]
rs4144664	0.88[ASN][1000 genomes]
rs56235436	0.83[AMR][1000 genomes]
rs57076710	0.83[ASN][1000 genomes]
rs60693449	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61564778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7039304	0.84[ASN][1000 genomes]
rs73650003	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652816	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652817	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652818	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652824	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652825	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652839	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652841	0.83[AMR][1000 genomes]
rs73652842	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652843	1.00[EUR][1000 genomes]
rs73652845	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652847	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73652849	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7855162	0.83[ASN][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	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1018514	chr9:21944275-22075326	Active TSS Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv892747	chr9:21984661-22068646	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22038200-22044000	Weak transcription	Dnd41	blood
2	chr9:22040200-22046000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr9:22041000-22045600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr9:22041000-22046400	Weak transcription	Duodenum Mucosa	Duodenum
5	chr9:22041400-22044600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:22042000-22048000	Weak transcription	Adipose Nuclei	Adipose
7	chr9:22042200-22044000	Weak transcription	Osteobl	bone
8	chr9:22042200-22044800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:22042200-22046600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:22042400-22044200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:22042400-22044200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr9:22042400-22044400	Weak transcription	NHLF	lung
13	chr9:22042400-22049200	Weak transcription	Hela-S3	cervix
14	chr9:22042600-22043800	Weak transcription	NH-A	brain
15	chr9:22042600-22044000	Weak transcription	NHDF-Ad	bronchial
16	chr9:22042600-22044600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:22042600-22049200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr9:22042600-22052600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr9:22042800-22044000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr9:22042800-22044000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:22042800-22044000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:22042800-22044000	Weak transcription	HMEC	breast
23	chr9:22042800-22044200	Weak transcription	HSMM	muscle
24	chr9:22042800-22044200	Weak transcription	NHEK	skin
25	chr9:22042800-22046000	Weak transcription	Fetal Intestine Small	intestine
26	chr9:22042800-22046200	Weak transcription	Fetal Intestine Large	intestine
27	chr9:22042800-22049400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr9:22042800-22052600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links