Variant report

Variant	rs16876223
Chromosome Location	chr6:15323484-15323485
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15317056..15319341-chr6:15321670..15323644,3	K562	blood:
2	chr6:15321161..15324088-chr6:15325760..15327373,2	K562	blood:
3	chr6:15320928..15323607-chr6:15325318..15329724,5	K562	blood:

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11969197	0.88[CHB][hapmap];0.89[CHD][hapmap]
rs16876202	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16876240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17619975	1.00[TSI][hapmap]
rs3857640	1.00[CEU][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61268125	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61520747	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS 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 miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv538144	chr6:15310696-15364984	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15311200-15330600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:15313200-15326600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:15313800-15325400	Weak transcription	Liver	Liver
4	chr6:15314000-15323800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:15314200-15324000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:15314200-15326600	Weak transcription	Ovary	ovary
7	chr6:15314400-15327600	Weak transcription	Aorta	Aorta
8	chr6:15317200-15323600	Enhancers	Primary hematopoietic stem cells	blood
9	chr6:15317400-15323600	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr6:15318000-15323800	Enhancers	K562	blood
11	chr6:15318200-15323600	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr6:15318200-15326600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr6:15318600-15326400	Weak transcription	Spleen	Spleen
14	chr6:15318800-15323800	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr6:15319000-15325800	Weak transcription	Adipose Nuclei	Adipose
16	chr6:15319000-15327600	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:15319000-15328600	Weak transcription	HSMM	muscle
18	chr6:15319200-15326800	Weak transcription	Right Atrium	heart
19	chr6:15319200-15327000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:15319200-15327000	Weak transcription	Fetal Brain Female	brain
21	chr6:15319200-15328000	Weak transcription	Fetal Stomach	stomach
22	chr6:15319200-15329000	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:15319400-15335800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr6:15319600-15326800	Weak transcription	Brain Cingulate Gyrus	brain
25	chr6:15319800-15326400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr6:15319800-15326600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:15319800-15327200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:15320000-15323800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:15320000-15325400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr6:15320000-15327000	Weak transcription	Fetal Heart	heart
31	chr6:15320200-15327600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr6:15320400-15323800	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr6:15320400-15324800	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr6:15320400-15328600	Weak transcription	Brain Germinal Matrix	brain
35	chr6:15321000-15323800	Enhancers	Primary T cells from cord blood	blood
36	chr6:15321000-15324000	Enhancers	Hela-S3	cervix
37	chr6:15321000-15324400	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr6:15321200-15325200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr6:15321600-15323600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:15321600-15323800	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr6:15322000-15323800	Enhancers	Primary T cells fromperipheralblood	blood
42	chr6:15322000-15324000	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr6:15322200-15323600	Enhancers	H1 Cell Line	embryonic stem cell
44	chr6:15322200-15323600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
45	chr6:15322200-15323600	Enhancers	Brain Hippocampus Middle	brain
46	chr6:15322200-15323800	Enhancers	Pancreas	Pancrea
47	chr6:15322200-15324000	Enhancers	Duodenum Mucosa	Duodenum
48	chr6:15322200-15324000	Enhancers	Fetal Intestine Large	intestine
49	chr6:15322200-15324000	Enhancers	Fetal Intestine Small	intestine
50	chr6:15322200-15324000	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links