Variant report

Variant	rs16856037
Chromosome Location	chr1:180453112-180453113
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:179850633..179853167-chr1:180451916..180454813,2	MCF-7	breast:
2	chr1:180407009..180409434-chr1:180451418..180454392,2	K562	blood:
3	chr1:180223335..180225527-chr1:180451966..180453650,2	K562	blood:
4	chr1:180452066..180455283-chr1:180469732..180473290,4	MCF-7	breast:
5	chr1:180451760..180453720-chr1:180467061..180469064,2	K562	blood:

Variant related genes	Relation type
ENSG00000143337	Chromatin interaction
ENSG00000272906	Chromatin interaction
ENSG00000265435	Chromatin interaction
ENSG00000135847	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1072856	1.00[EUR][1000 genomes]
rs16855661	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855695	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855749	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855769	1.00[EUR][1000 genomes]
rs16855834	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855850	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855855	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855910	0.81[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855982	0.82[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855986	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16855990	1.00[EUR][1000 genomes]
rs16856007	0.81[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16856064	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4590641	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55675122	1.00[EUR][1000 genomes]
rs55698496	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55719709	1.00[EUR][1000 genomes]
rs55754938	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56005059	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56089354	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56128856	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56233435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56246577	1.00[EUR][1000 genomes]
rs56376445	1.00[EUR][1000 genomes]
rs57451284	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57948698	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58175505	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59566983	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59612061	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60088677	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60300532	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60439251	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60509208	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60729009	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60923108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60993519	1.00[EUR][1000 genomes]
rs61057572	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61700262	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6672551	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6675201	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6675208	0.81[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132445	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74132456	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132457	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132463	1.00[EUR][1000 genomes]
rs74132465	1.00[EUR][1000 genomes]
rs74132472	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132478	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132803	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74132903	1.00[EUR][1000 genomes]
rs74132904	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132915	1.00[EUR][1000 genomes]
rs74132919	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74132933	1.00[EUR][1000 genomes]
rs74135059	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74135188	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7518809	1.00[EUR][1000 genomes]
rs7518923	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7520598	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7536470	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7537732	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7548328	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9659140	0.82[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv1013716	chr1:180287338-180477072	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
4	nsv535221	chr1:180287338-180477072	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
5	esv2762200	chr1:180300936-180493841	ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers 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	40 gene(s)	inside rSNPs	diseases
6	nsv1003359	chr1:180300936-180727561	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases
7	nsv949311	chr1:180438895-180692815	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180404400-180469000	Weak transcription	Pancreas	Pancrea
2	chr1:180425800-180457600	Weak transcription	Aorta	Aorta
3	chr1:180428000-180470000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr1:180429600-180455000	Weak transcription	Left Ventricle	heart
5	chr1:180430200-180454600	Weak transcription	Thymus	Thymus
6	chr1:180431200-180470200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr1:180432000-180470600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr1:180433600-180454200	Weak transcription	Adipose Nuclei	Adipose
9	chr1:180433800-180455000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr1:180434000-180465600	Weak transcription	Fetal Brain Male	brain
11	chr1:180434200-180470200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr1:180434800-180458800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr1:180435000-180456400	Weak transcription	Fetal Kidney	kidney
14	chr1:180435200-180454400	Weak transcription	Fetal Muscle Trunk	muscle
15	chr1:180435200-180469000	Weak transcription	Brain Angular Gyrus	brain
16	chr1:180437600-180454600	Weak transcription	Gastric	stomach
17	chr1:180437600-180455200	Weak transcription	Ovary	ovary
18	chr1:180437600-180470400	Weak transcription	Right Ventricle	heart
19	chr1:180437600-180470600	Weak transcription	Spleen	Spleen
20	chr1:180437600-180471000	Weak transcription	Lung	lung
21	chr1:180437800-180454400	Weak transcription	Fetal Intestine Large	intestine
22	chr1:180438600-180454400	Weak transcription	Fetal Thymus	thymus
23	chr1:180438800-180454400	Weak transcription	HepG2	liver
24	chr1:180440000-180455200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr1:180440000-180469000	Weak transcription	HSMMtube	muscle
26	chr1:180440200-180468400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr1:180440200-180469000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr1:180441400-180455200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr1:180441600-180453800	Weak transcription	HUES6 Cell Line	embryonic stem cell
30	chr1:180441800-180462800	Weak transcription	NHLF	lung
31	chr1:180442200-180454800	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr1:180442200-180454800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr1:180443400-180468200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr1:180444800-180454800	Weak transcription	Psoas Muscle	Psoas
35	chr1:180444800-180470600	Weak transcription	Esophagus	oesophagus
36	chr1:180446400-180455200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr1:180446400-180455400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr1:180447000-180470400	Weak transcription	Colonic Mucosa	Colon
39	chr1:180447400-180457000	Weak transcription	NH-A	brain
40	chr1:180447800-180469000	Weak transcription	Brain Cingulate Gyrus	brain
41	chr1:180448200-180454400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr1:180448400-180454200	Weak transcription	Fetal Lung	lung
43	chr1:180448400-180454600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr1:180448400-180470200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr1:180448600-180454200	Weak transcription	HSMM	muscle
46	chr1:180448600-180455200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr1:180448800-180454400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr1:180448800-180460800	Weak transcription	Brain Germinal Matrix	brain
49	chr1:180449000-180453400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr1:180449000-180453600	Weak transcription	Rectal Mucosa Donor 29	rectum

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