Variant report

Variant	rs58131227
Chromosome Location	chr16:70301143-70301144
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	POLR2A	chr16:70301047-70304603	K562	blood:	n/a	n/a
2	CTCF	chr16:70301054-70301934	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr16:70298741..70301676-chr16:70322004..70324740,3	MCF-7	breast:
2	chr16:70297087..70298823-chr16:70301009..70302721,2	K562	blood:
3	chr16:70296470..70298823-chr16:70300814..70302509,2	K562	blood:

Variant related genes	Relation type
AARS	TF binding region
RN7SL407P	TF binding region
ENSG00000157349	Chromatin interaction
ENSG00000265230	Chromatin interaction
ENSG00000090861	Chromatin interaction

Extended variants
information (count: 146 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs11537667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11859191	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11859257	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11859730	0.90[AMR][1000 genomes]
rs11859827	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11860870	0.90[AFR][1000 genomes]
rs11860922	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11861097	0.81[AMR][1000 genomes]
rs11862053	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11862150	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11862188	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11863943	1.00[EUR][1000 genomes]
rs11864179	1.00[EUR][1000 genomes]
rs11865484	1.00[EUR][1000 genomes]
rs11865564	1.00[EUR][1000 genomes]
rs11866378	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11866451	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16970121	1.00[EUR][1000 genomes]
rs16970147	1.00[EUR][1000 genomes]
rs16970302	1.00[EUR][1000 genomes]
rs16970361	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16970609	0.91[AFR][1000 genomes]
rs17878609	1.00[EUR][1000 genomes]
rs17878832	1.00[EUR][1000 genomes]
rs17880242	1.00[EUR][1000 genomes]
rs17881069	1.00[EUR][1000 genomes]
rs17881219	1.00[EUR][1000 genomes]
rs17883309	1.00[EUR][1000 genomes]
rs17886064	1.00[EUR][1000 genomes]
rs2869156	1.00[AMR][1000 genomes]
rs3096368	1.00[EUR][1000 genomes]
rs35904382	1.00[EUR][1000 genomes]
rs3972037	0.89[AMR][1000 genomes]
rs3972075	0.90[AMR][1000 genomes]
rs55657328	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55769835	1.00[EUR][1000 genomes]
rs55805938	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55819743	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55936739	0.98[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55963712	0.81[AMR][1000 genomes]
rs55965002	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55971559	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56043981	0.89[AFR][1000 genomes]
rs56050266	1.00[EUR][1000 genomes]
rs56051513	0.90[AMR][1000 genomes]
rs56082018	1.00[EUR][1000 genomes]
rs56090000	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56096542	0.87[AFR][1000 genomes]
rs56217164	0.91[AFR][1000 genomes]
rs56234537	0.91[AFR][1000 genomes]
rs56980444	1.00[EUR][1000 genomes]
rs57279408	0.91[AFR][1000 genomes]
rs57320283	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57422630	1.00[EUR][1000 genomes]
rs57623576	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58047061	1.00[EUR][1000 genomes]
rs58319566	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs58328210	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58467558	1.00[EUR][1000 genomes]
rs59384897	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59612351	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59769732	1.00[AMR][1000 genomes]
rs59791510	0.89[AFR][1000 genomes]
rs59849898	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59928915	0.82[AFR][1000 genomes]
rs60103946	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60426209	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60463946	1.00[AMR][1000 genomes]
rs60523557	0.89[AFR][1000 genomes]
rs60567469	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs60815141	1.00[EUR][1000 genomes]
rs60841206	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61172065	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61319691	1.00[EUR][1000 genomes]
rs61391917	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61594809	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6499307	0.81[AMR][1000 genomes]
rs6499309	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6499312	1.00[EUR][1000 genomes]
rs6499313	1.00[EUR][1000 genomes]
rs6499314	1.00[EUR][1000 genomes]
rs6499315	1.00[EUR][1000 genomes]
rs7184248	0.87[AFR][1000 genomes]
rs7185665	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7186024	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7188864	1.00[EUR][1000 genomes]
rs7189535	0.81[AMR][1000 genomes]
rs7190536	1.00[EUR][1000 genomes]
rs7190921	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7192000	1.00[EUR][1000 genomes]
rs7195086	1.00[EUR][1000 genomes]
rs7195567	0.89[AFR][1000 genomes]
rs7198871	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7199346	1.00[EUR][1000 genomes]
rs7199655	1.00[EUR][1000 genomes]
rs7204800	0.89[AFR][1000 genomes]
rs7205871	0.87[AFR][1000 genomes]
rs7205918	1.00[EUR][1000 genomes]
rs7206347	1.00[EUR][1000 genomes]
rs74024172	0.90[AMR][1000 genomes]
rs74024176	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024177	1.00[AMR][1000 genomes]
rs74024180	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024182	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74024183	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74024184	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74024185	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74024186	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74024187	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024188	1.00[EUR][1000 genomes]
rs74024191	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024193	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024196	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024199	0.89[AFR][1000 genomes]
rs74024200	0.89[AFR][1000 genomes]
rs74026022	1.00[EUR][1000 genomes]
rs74026033	1.00[EUR][1000 genomes]
rs74026049	1.00[EUR][1000 genomes]
rs8044699	0.90[AMR][1000 genomes]
rs8045571	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8045769	0.90[AMR][1000 genomes]
rs8046253	1.00[EUR][1000 genomes]
rs8046280	0.85[AFR][1000 genomes]
rs8046662	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8046786	1.00[EUR][1000 genomes]
rs8049046	1.00[EUR][1000 genomes]
rs8051869	0.82[AFR][1000 genomes]
rs8053040	0.89[AFR][1000 genomes]
rs8053657	1.00[EUR][1000 genomes]
rs8054203	1.00[EUR][1000 genomes]
rs8055675	0.81[AMR][1000 genomes]
rs8056196	0.81[AMR][1000 genomes]
rs8056811	1.00[EUR][1000 genomes]
rs8062602	1.00[EUR][1000 genomes]
rs8063749	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8064090	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758428	chr16:69855122-70313222	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
2	esv2758652	chr16:69855122-70313222	Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv428328	chr16:69986563-70313222	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	esv1820100	chr16:70048808-70311044	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	esv33745	chr16:70116599-70319873	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
6	esv1801017	chr16:70141558-70303736	Strong transcription Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv833271	chr16:70185694-70353334	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
8	nsv1061286	chr16:70253809-70331407	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
9	nsv906870	chr16:70295061-70323126	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	esv2251789	chr16:70301143-70301144	Weak transcription Strong transcription	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:70285800-70310200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr16:70286000-70306200	Strong transcription	Rectal Mucosa Donor 31	rectum
3	chr16:70286000-70307400	Strong transcription	Primary T cells from cord blood	blood
4	chr16:70286000-70316400	Strong transcription	Liver	Liver
5	chr16:70286000-70318600	Strong transcription	Fetal Intestine Large	intestine
6	chr16:70286000-70319000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr16:70286000-70320000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
8	chr16:70286000-70320400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr16:70286000-70320400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr16:70286000-70320400	Strong transcription	HUES48 Cell Line	embryonic stem cell
11	chr16:70286000-70320400	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr16:70286000-70320400	Strong transcription	Osteobl	bone
13	chr16:70286000-70321400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:70286000-70321400	Strong transcription	HUES6 Cell Line	embryonic stem cell
15	chr16:70286200-70303400	Strong transcription	Lung	lung
16	chr16:70286200-70304600	Strong transcription	A549	lung
17	chr16:70286200-70305800	Strong transcription	Gastric	stomach
18	chr16:70286200-70306000	Strong transcription	Brain Hippocampus Middle	brain
19	chr16:70286200-70306000	Strong transcription	Skeletal Muscle Female	skeletal muscle
20	chr16:70286200-70306800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr16:70286200-70306800	Strong transcription	Right Ventricle	heart
22	chr16:70286200-70306800	Strong transcription	NHLF	lung
23	chr16:70286200-70307400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr16:70286200-70307400	Strong transcription	Cortex derived primary cultured neurospheres	brain
25	chr16:70286200-70307400	Strong transcription	Brain Cingulate Gyrus	brain
26	chr16:70286200-70307600	Strong transcription	Brain Angular Gyrus	brain
27	chr16:70286200-70311000	Strong transcription	Brain Inferior Temporal Lobe	brain
28	chr16:70286200-70316600	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr16:70286200-70317200	Strong transcription	Placenta	Placenta
30	chr16:70286200-70317400	Strong transcription	Duodenum Mucosa	Duodenum
31	chr16:70286200-70317400	Strong transcription	Fetal Thymus	thymus
32	chr16:70286200-70318600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr16:70286200-70319000	Strong transcription	Stomach Smooth Muscle	stomach
34	chr16:70286200-70319600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr16:70286200-70319800	Strong transcription	Fetal Muscle Trunk	muscle
36	chr16:70286200-70320000	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr16:70286200-70320400	Strong transcription	Fetal Muscle Leg	muscle
38	chr16:70286200-70320400	Strong transcription	Skeletal Muscle Male	skeletal muscle
39	chr16:70286200-70320600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr16:70286200-70321200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr16:70286200-70321400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr16:70286200-70321400	Strong transcription	Fetal Stomach	stomach
43	chr16:70286200-70321600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr16:70286400-70306000	Strong transcription	Spleen	Spleen
45	chr16:70286400-70306200	Strong transcription	Left Ventricle	heart
46	chr16:70286400-70307200	Strong transcription	Fetal Brain Female	brain
47	chr16:70286400-70307200	Strong transcription	Thymus	Thymus
48	chr16:70286400-70308400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr16:70286400-70309000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr16:70286400-70316800	Strong transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links