Variant report

Variant	rs16889567
Chromosome Location	chr6:24650626-24650627
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24645419..24648668-chr6:24649660..24654397,7	K562	blood:
2	chr6:24649500..24652136-chr6:24718347..24721312,2	K562	blood:

Variant related genes	Relation type
ENSG00000137261	Chromatin interaction
ENSG00000112308	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11559067	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17243276	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17249561	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17249729	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17412874	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17419844	1.00[ASN][1000 genomes]
rs17491730	1.00[ASN][1000 genomes]
rs3212238	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400556	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400558	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400559	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400760	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400773	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400774	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400783	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400786	1.00[ASN][1000 genomes]
rs62400787	1.00[ASN][1000 genomes]
rs62400789	1.00[ASN][1000 genomes]
rs62400790	1.00[ASN][1000 genomes]
rs62400792	1.00[ASN][1000 genomes]
rs62400793	1.00[ASN][1000 genomes]
rs62400795	1.00[ASN][1000 genomes]
rs62400819	1.00[ASN][1000 genomes]
rs62402860	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62402863	0.89[EUR][1000 genomes]
rs62402864	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3508002	chr6:24618580-24732946	Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv3508003	chr6:24618580-24732946	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
3	nsv601164	chr6:24625091-24661599	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
4	nsv601165	chr6:24632642-24666007	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	10 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	chr6:24646400-24658800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:24646600-24652200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:24646600-24655800	Weak transcription	Aorta	Aorta
4	chr6:24646800-24650800	Weak transcription	Fetal Muscle Trunk	muscle
5	chr6:24646800-24651800	Weak transcription	Fetal Stomach	stomach
6	chr6:24646800-24651800	Weak transcription	Left Ventricle	heart
7	chr6:24646800-24651800	Weak transcription	Psoas Muscle	Psoas
8	chr6:24646800-24652000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:24646800-24652000	Weak transcription	Ovary	ovary
10	chr6:24646800-24652400	Weak transcription	Fetal Lung	lung
11	chr6:24646800-24652600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:24646800-24652600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr6:24646800-24653000	Weak transcription	HSMMtube	muscle
14	chr6:24646800-24653200	Weak transcription	Fetal Brain Male	brain
15	chr6:24646800-24653200	Weak transcription	Gastric	stomach
16	chr6:24646800-24655600	Weak transcription	Pancreas	Pancrea
17	chr6:24646800-24662400	Weak transcription	Right Ventricle	heart
18	chr6:24646800-24662600	Weak transcription	Spleen	Spleen
19	chr6:24646800-24666000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr6:24647000-24650800	Weak transcription	Brain Anterior Caudate	brain
21	chr6:24647000-24650800	Weak transcription	Fetal Heart	heart
22	chr6:24647000-24650800	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:24647000-24651000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:24647000-24651800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr6:24647000-24651800	Weak transcription	Fetal Intestine Small	intestine
26	chr6:24647000-24652000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr6:24647000-24652000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:24647000-24652200	Weak transcription	Primary B cells from cord blood	blood
29	chr6:24647000-24652200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr6:24647000-24652200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:24647000-24652200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr6:24647000-24652200	Weak transcription	Brain Angular Gyrus	brain
33	chr6:24647000-24652200	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:24647000-24652200	Weak transcription	Brain Germinal Matrix	brain
35	chr6:24647000-24652200	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr6:24647000-24652400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr6:24647000-24653000	Weak transcription	HUVEC	blood vessel
38	chr6:24647000-24653200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:24647000-24659000	Weak transcription	Stomach Mucosa	stomach
40	chr6:24647000-24662200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr6:24647000-24662400	Weak transcription	Lung	lung
42	chr6:24647000-24662600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr6:24647000-24666400	Weak transcription	Esophagus	oesophagus
44	chr6:24647200-24650800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr6:24647200-24652000	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr6:24647200-24652000	Weak transcription	NHDF-Ad	bronchial
47	chr6:24647200-24652200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:24647200-24652200	Weak transcription	NHEK	skin
49	chr6:24647200-24652400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr6:24647200-24652600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links