Variant report

Variant	rs16836939
Chromosome Location	chr1:150416551-150416552
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:150415565..150418212-chr1:151299345..151301312,2	MCF-7	breast:
2	chr1:150335493..150339084-chr1:150413867..150416621,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000273481	Chromatin interaction
ENSG00000143393	Chromatin interaction
ENSG00000163125	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11205386	0.88[YRI][hapmap]
rs16835698	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16835714	1.00[YRI][hapmap]
rs16835872	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16835995	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs16836615	1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16836849	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16837013	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16837048	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16837392	1.00[AMR][1000 genomes]
rs16837434	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs56871849	1.00[AMR][1000 genomes]
rs59540922	1.00[AMR][1000 genomes]
rs61008863	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696859	0.83[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916014	chr1:150187139-150537483	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	164 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:150340000-150416800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr1:150362600-150416600	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr1:150373200-150442800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:150380600-150429800	Weak transcription	Aorta	Aorta
5	chr1:150381800-150417400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr1:150382000-150418200	Weak transcription	Colonic Mucosa	Colon
7	chr1:150382000-150432400	Weak transcription	Fetal Brain Male	brain
8	chr1:150383000-150416600	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr1:150383400-150419000	Weak transcription	Fetal Kidney	kidney
10	chr1:150383400-150419000	Weak transcription	Gastric	stomach
11	chr1:150383400-150432200	Weak transcription	Right Ventricle	heart
12	chr1:150383400-150443200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr1:150383600-150416800	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr1:150383600-150418200	Weak transcription	Pancreas	Pancrea
15	chr1:150386800-150429800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr1:150388600-150416600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr1:150388600-150416600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr1:150388600-150416800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr1:150389400-150423400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr1:150389600-150417000	Weak transcription	HMEC	breast
21	chr1:150390000-150429600	Weak transcription	A549	lung
22	chr1:150391600-150416800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:150391800-150416800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr1:150392600-150418400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr1:150393200-150418200	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr1:150393400-150429800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr1:150393600-150418800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr1:150393600-150420600	Weak transcription	Brain Angular Gyrus	brain
29	chr1:150393600-150429800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr1:150393800-150429800	Weak transcription	NHEK	skin
31	chr1:150395800-150419000	Weak transcription	Spleen	Spleen
32	chr1:150397000-150419000	Weak transcription	Esophagus	oesophagus
33	chr1:150401400-150448200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr1:150405200-150422400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr1:150405400-150418400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr1:150406800-150418800	Weak transcription	HSMMtube	muscle
37	chr1:150407800-150418600	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr1:150408400-150416600	Weak transcription	HepG2	liver
39	chr1:150408400-150425000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr1:150409600-150427200	Weak transcription	Small Intestine	intestine
41	chr1:150409800-150437000	Strong transcription	Fetal Thymus	thymus
42	chr1:150410000-150429800	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr1:150410800-150434400	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr1:150411000-150429800	Weak transcription	HUVEC	blood vessel
45	chr1:150411200-150446400	Strong transcription	Dnd41	blood
46	chr1:150411600-150422800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
47	chr1:150412000-150443000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr1:150412600-150428200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr1:150412800-150417400	Weak transcription	Fetal Intestine Small	intestine
50	chr1:150412800-150417400	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links