Variant report

Variant	rs16832866
Chromosome Location	chr1:161334648-161334649
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	chr1:161334600-161334750	GM12864	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:161334444..161337167-chr1:161357500..161360839,3	K562	blood:
2	chr1:161334293..161337194-chr1:161337743..161340584,3	K562	blood:
3	chr1:161328582..161330523-chr1:161333612..161336160,2	MCF-7	breast:
4	chr1:161333138..161335243-chr1:161353873..161355645,2	K562	blood:

Variant related genes	Relation type
ENSG00000235477	TF binding region
ENSG00000235477	Chromatin interaction

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs10157158	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs10158388	0.80[ASN][1000 genomes]
rs10494350	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs10494351	0.91[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs10494352	0.91[CHB][hapmap];0.87[JPT][hapmap];0.80[ASN][1000 genomes]
rs10494353	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs10494354	0.80[ASN][1000 genomes]
rs10494355	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1133805	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs1133806	0.80[ASN][1000 genomes]
rs11582439	0.83[CHB][hapmap]
rs12239492	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs12239719	0.80[ASN][1000 genomes]
rs12385733	0.80[ASN][1000 genomes]
rs12725465	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs12730813	0.83[CHB][hapmap];0.88[JPT][hapmap]
rs12738660	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs12745476	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs13374037	0.89[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832790	1.00[CEU][hapmap];0.81[CHB][hapmap];0.85[GIH][hapmap]
rs16832809	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832811	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832813	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832817	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832820	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs16832823	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832824	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832826	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832835	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832842	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832846	0.80[ASN][1000 genomes]
rs16832850	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16832851	0.91[CHB][hapmap];0.81[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832854	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832869	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832871	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832872	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16832874	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832883	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832884	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832887	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832892	0.91[CHB][hapmap];0.88[JPT][hapmap]
rs16832894	0.80[ASN][1000 genomes]
rs16832897	0.80[ASN][1000 genomes]
rs16832900	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs16832902	0.80[ASN][1000 genomes]
rs16832908	0.80[ASN][1000 genomes]
rs16832922	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs16832948	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs16832949	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs3087596	0.80[ASN][1000 genomes]
rs35006684	0.80[ASN][1000 genomes]
rs3934593	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs3935401	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4077289	0.80[ASN][1000 genomes]
rs4077290	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4077629	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4077631	0.90[CHB][hapmap]
rs41270861	0.80[ASN][1000 genomes]
rs4255402	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs4255403	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs4291521	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs4319356	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4463689	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4469725	0.82[ASN][1000 genomes]
rs4474277	0.90[CHB][hapmap];0.88[JPT][hapmap]
rs4477296	0.82[ASN][1000 genomes]
rs4481873	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4523531	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4525064	0.80[ASN][1000 genomes]
rs4534404	0.80[ASN][1000 genomes]
rs4534405	0.80[ASN][1000 genomes]
rs4585997	1.00[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs4600063	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs4631719	0.82[ASN][1000 genomes]
rs4634926	0.80[ASN][1000 genomes]
rs4634927	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs55694670	1.00[ASN][1000 genomes]
rs55729989	0.80[ASN][1000 genomes]
rs55783815	0.80[ASN][1000 genomes]
rs55807618	0.80[ASN][1000 genomes]
rs55809622	0.80[ASN][1000 genomes]
rs55857747	0.88[ASN][1000 genomes]
rs55929617	0.80[ASN][1000 genomes]
rs56007456	0.80[ASN][1000 genomes]
rs56050874	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56290916	0.80[ASN][1000 genomes]
rs56406825	0.80[ASN][1000 genomes]
rs56868836	0.80[ASN][1000 genomes]
rs57007882	0.80[ASN][1000 genomes]
rs57270150	0.80[ASN][1000 genomes]
rs57306652	0.80[ASN][1000 genomes]
rs57421557	0.80[ASN][1000 genomes]
rs57473118	0.80[ASN][1000 genomes]
rs57835711	0.80[ASN][1000 genomes]
rs57841279	0.80[ASN][1000 genomes]
rs57858140	0.80[ASN][1000 genomes]
rs57884260	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57931640	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58138146	0.80[ASN][1000 genomes]
rs58604210	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58842513	0.80[ASN][1000 genomes]
rs58874147	0.80[ASN][1000 genomes]
rs59191996	0.80[ASN][1000 genomes]
rs59340690	0.80[ASN][1000 genomes]
rs59544428	0.80[ASN][1000 genomes]
rs59559479	0.80[ASN][1000 genomes]
rs59747425	0.80[ASN][1000 genomes]
rs59774375	0.80[ASN][1000 genomes]
rs59840298	0.80[ASN][1000 genomes]
rs60179510	0.80[ASN][1000 genomes]
rs60382588	0.80[ASN][1000 genomes]
rs61000526	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61174143	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61308286	0.80[ASN][1000 genomes]
rs61326870	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61447446	0.80[ASN][1000 genomes]
rs61461118	0.80[ASN][1000 genomes]
rs61576374	0.80[ASN][1000 genomes]
rs61653684	0.80[ASN][1000 genomes]
rs7412460	0.91[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs74124945	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs74127624	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs74127638	0.80[ASN][1000 genomes]
rs74127639	0.80[ASN][1000 genomes]
rs74127640	1.00[ASN][1000 genomes]
rs74127641	0.80[ASN][1000 genomes]
rs74127656	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74127657	0.80[ASN][1000 genomes]
rs74127658	0.80[ASN][1000 genomes]
rs9330294	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs9970904	0.91[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432986	chr1:161221133-161673682	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv1010776	chr1:161282384-161409218	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161286800-161337400	Weak transcription	Fetal Heart	heart
2	chr1:161287000-161337400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr1:161294200-161337400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr1:161294200-161338200	Weak transcription	Small Intestine	intestine
5	chr1:161304600-161342600	Weak transcription	Esophagus	oesophagus
6	chr1:161305000-161337800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr1:161305400-161337400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr1:161307400-161337600	Weak transcription	Psoas Muscle	Psoas
9	chr1:161310600-161337400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:161312600-161335800	Weak transcription	Brain Substantia Nigra	brain
11	chr1:161312600-161341200	Weak transcription	HMEC	breast
12	chr1:161313000-161337600	Weak transcription	Spleen	Spleen
13	chr1:161313000-161338400	Weak transcription	Pancreas	Pancrea
14	chr1:161313000-161341000	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr1:161313000-161341200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr1:161313200-161337600	Weak transcription	Right Ventricle	heart
17	chr1:161313400-161336000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:161315000-161335000	Weak transcription	A549	lung
19	chr1:161315200-161336000	Weak transcription	GM12878-XiMat	blood
20	chr1:161317000-161337400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr1:161317200-161336000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr1:161317200-161338200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr1:161320600-161337000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr1:161321600-161337800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:161321800-161348800	Weak transcription	Gastric	stomach
26	chr1:161326200-161337200	Strong transcription	Primary T cells fromperipheralblood	blood
27	chr1:161327200-161339200	Weak transcription	NHLF	lung
28	chr1:161327400-161337800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr1:161327400-161337800	Weak transcription	Brain Germinal Matrix	brain
30	chr1:161327400-161352600	Weak transcription	Lung	lung
31	chr1:161327600-161338600	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr1:161327800-161337400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr1:161328400-161334800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr1:161328400-161359000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr1:161328600-161359000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr1:161328800-161336800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr1:161329200-161337400	Weak transcription	Primary hematopoietic stem cells	blood
38	chr1:161329600-161337400	Weak transcription	Brain Hippocampus Middle	brain
39	chr1:161329800-161335600	Weak transcription	HSMM	muscle
40	chr1:161329800-161337000	Weak transcription	Brain Anterior Caudate	brain
41	chr1:161329800-161337400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr1:161329800-161337400	Weak transcription	Fetal Kidney	kidney
43	chr1:161329800-161337800	Weak transcription	Brain Cingulate Gyrus	brain
44	chr1:161330800-161336800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr1:161331000-161336800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr1:161331200-161336800	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr1:161331200-161336800	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr1:161331400-161336000	Strong transcription	HepG2	liver
49	chr1:161331600-161336400	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr1:161331600-161336800	Strong transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links