Variant report

Variant	rs57204609
Chromosome Location	chr16:31541133-31541134
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:31539583..31542235-chr16:31544201..31546359,2	MCF-7	breast:
2	chr16:31530119..31532090-chr16:31539372..31541784,2	MCF-7	breast:
3	chr16:31517756..31521127-chr16:31538452..31541350,5	K562	blood:
4	chr16:31537316..31539067-chr16:31539316..31542062,2	K562	blood:
5	chr16:31517850..31520614-chr16:31538452..31541283,3	K562	blood:

Variant related genes	Relation type
ENSG00000140688	Chromatin interaction
ENSG00000260625	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10083733	0.82[EUR][1000 genomes]
rs11866003	0.93[ASN][1000 genomes]
rs13338939	0.97[ASN][1000 genomes]
rs13339026	0.97[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17677	0.83[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs28496948	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28509322	0.97[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs28788792	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4296276	0.97[ASN][1000 genomes]
rs4499252	0.97[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4503808	0.92[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4553646	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4564590	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4889545	0.93[ASN][1000 genomes]
rs4889667	0.93[ASN][1000 genomes]
rs4889670	0.95[ASN][1000 genomes]
rs4889671	0.95[ASN][1000 genomes]
rs4889672	0.97[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs58618301	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58729087	0.93[ASN][1000 genomes]
rs58790407	0.82[EUR][1000 genomes]
rs59050904	0.82[EUR][1000 genomes]
rs59813627	0.93[ASN][1000 genomes]
rs61183892	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62053184	0.97[ASN][1000 genomes]
rs62053205	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62053209	0.97[ASN][1000 genomes]
rs62053210	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62053212	0.82[EUR][1000 genomes]
rs62053215	0.84[EUR][1000 genomes]
rs7190117	0.82[EUR][1000 genomes]
rs7196030	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7196319	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7196393	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7202020	0.96[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7203199	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs8056084	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8057393	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9921592	0.97[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs9921597	0.97[ASN][1000 genomes]
rs9923241	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9923480	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9928760	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9929779	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9929825	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9937077	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9937367	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3392534	chr16:31303038-31573066	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	104 gene(s)	inside rSNPs	diseases
2	nsv905747	chr16:31394179-31888684	Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	123 gene(s)	inside rSNPs	diseases
3	nsv905748	chr16:31427678-31559220	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	94 gene(s)	inside rSNPs	diseases
4	nsv905749	chr16:31427678-31565597	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	96 gene(s)	inside rSNPs	diseases
5	nsv905750	chr16:31427678-31587662	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	98 gene(s)	inside rSNPs	diseases
6	nsv905752	chr16:31436932-31565597	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	95 gene(s)	inside rSNPs	diseases
7	nsv905753	chr16:31436932-31587662	Enhancers Active TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	97 gene(s)	inside rSNPs	diseases
8	nsv905754	chr16:31451699-31565597	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	93 gene(s)	inside rSNPs	diseases
9	nsv1060240	chr16:31495873-31581450	Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
10	esv1823209	chr16:31521276-31580272	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
11	esv3344221	chr16:31526786-31821640	Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
12	esv3323903	chr16:31526802-31821640	Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
13	esv3504445	chr16:31526873-31821580	Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
14	esv3504446	chr16:31526873-31821580	Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
15	esv3366795	chr16:31534951-31827424	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
16	nsv960003	chr16:31540814-31561659	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:31539400-31541200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
2	chr16:31539400-31541600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr16:31539600-31541600	Bivalent/Poised TSS	Fetal Kidney	kidney
4	chr16:31540000-31541200	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
5	chr16:31540000-31541400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
6	chr16:31540000-31541600	Active TSS	Colon Smooth Muscle	Colon
7	chr16:31540000-31541600	Enhancers	Gastric	stomach
8	chr16:31540000-31541800	Active TSS	Aorta	Aorta
9	chr16:31540200-31541200	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
10	chr16:31540200-31541200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
11	chr16:31540200-31541200	Active TSS	Right Atrium	heart
12	chr16:31540200-31541200	Bivalent/Poised TSS	HSMM	muscle
13	chr16:31540200-31541400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
14	chr16:31540200-31541400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
15	chr16:31540200-31541400	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr16:31540200-31541400	Active TSS	Breast Myoepithelial Primary Cells	Breast
17	chr16:31540200-31541400	Bivalent/Poised TSS	A549	lung
18	chr16:31540200-31541600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr16:31540200-31541600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr16:31540200-31541600	Bivalent/Poised TSS	Colonic Mucosa	Colon
21	chr16:31540200-31541800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
22	chr16:31540400-31541200	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr16:31540400-31541200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
24	chr16:31540400-31541200	Bivalent/Poised TSS	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr16:31540400-31541200	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr16:31540400-31541200	Bivalent/Poised TSS	Brain Germinal Matrix	brain
27	chr16:31540400-31541200	Bivalent/Poised TSS	Fetal Lung	lung
28	chr16:31540400-31541200	Active TSS	Ovary	ovary
29	chr16:31540400-31541200	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
30	chr16:31540400-31541200	Active TSS	Right Ventricle	heart
31	chr16:31540400-31541400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
32	chr16:31540400-31541400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr16:31540400-31541400	Bivalent/Poised TSS	Fetal Brain Female	brain
34	chr16:31540400-31541600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
35	chr16:31540400-31541600	Bivalent/Poised TSS	Primary T regulatory cells fromperipheralblood	blood
36	chr16:31540400-31541600	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
37	chr16:31540600-31541200	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr16:31540600-31541200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
39	chr16:31540600-31541200	Bivalent/Poised TSS	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr16:31540600-31541200	Bivalent/Poised TSS	Brain Anterior Caudate	brain
41	chr16:31540600-31541200	Active TSS	Pancreas	Pancrea
42	chr16:31540600-31541200	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
43	chr16:31540600-31541200	Bivalent/Poised TSS	HepG2	liver
44	chr16:31540600-31541400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr16:31540600-31541400	Bivalent Enhancer	Liver	Liver
46	chr16:31540600-31541400	Active TSS	Fetal Heart	heart
47	chr16:31540600-31541400	Bivalent/Poised TSS	Fetal Intestine Small	intestine
48	chr16:31540800-31541200	Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr16:31540800-31541200	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr16:31540800-31541200	Bivalent/Poised TSS	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links