Variant report

Variant	rs9816722
Chromosome Location	chr3:196343774-196343775
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:196342884..196345057-chr3:196358684..196361368,2	MCF-7	breast:
2	chr3:196342656..196345051-chr3:196357362..196359188,2	K562	blood:

Variant related genes	Relation type
ENSG00000232065	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs28529075	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28664893	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34180254	0.93[EUR][1000 genomes]
rs35107793	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4605582	0.93[EUR][1000 genomes]
rs7617545	0.93[EUR][1000 genomes]
rs7653474	0.93[EUR][1000 genomes]
rs9826948	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9827118	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9853127	0.85[EUR][1000 genomes]
rs9882393	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
3	nsv1014692	chr3:196242249-196531824	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription 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	48 gene(s)	inside rSNPs	diseases
4	nsv878187	chr3:196245603-196554790	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv491864	chr3:196263064-196468533	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
6	nsv829828	chr3:196268121-196463641	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats 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
7	nsv1010643	chr3:196288064-196788645	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
8	nsv878188	chr3:196312124-196553867	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196336800-196345800	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr3:196337000-196347000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:196337200-196347000	Weak transcription	Duodenum Mucosa	Duodenum
4	chr3:196339000-196346000	Weak transcription	Stomach Smooth Muscle	stomach
5	chr3:196339200-196346200	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr3:196339400-196344200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr3:196339400-196345800	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:196339400-196346000	Weak transcription	Right Atrium	heart
9	chr3:196339600-196346000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr3:196339600-196346000	Weak transcription	Brain Anterior Caudate	brain
11	chr3:196339600-196346200	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:196339600-196346800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:196339600-196347000	Weak transcription	Primary B cells from cord blood	blood
14	chr3:196339600-196347000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:196339600-196347000	Weak transcription	Lung	lung
16	chr3:196339600-196354800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:196339800-196344200	Weak transcription	Thymus	Thymus
18	chr3:196339800-196345800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr3:196339800-196346000	Weak transcription	Adipose Nuclei	Adipose
20	chr3:196339800-196346000	Weak transcription	Placenta	Placenta
21	chr3:196339800-196351000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr3:196340000-196344200	Weak transcription	Primary T cells from cord blood	blood
23	chr3:196340000-196346000	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:196340000-196346000	Weak transcription	K562	blood
25	chr3:196340000-196347200	Weak transcription	Spleen	Spleen
26	chr3:196340600-196350200	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr3:196340800-196346000	Weak transcription	HUVEC	blood vessel
28	chr3:196340800-196346800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr3:196341000-196346200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr3:196341200-196344000	Weak transcription	Fetal Thymus	thymus
31	chr3:196341400-196344000	Weak transcription	Dnd41	blood
32	chr3:196342400-196344200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr3:196342400-196347200	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr3:196343000-196349200	Enhancers	Primary hematopoietic stem cells	blood
35	chr3:196343400-196346000	Enhancers	Monocytes-CD14+_RO01746	blood
36	chr3:196343400-196351000	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr3:196343600-196343800	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links