Variant report

Variant	rs28493305
Chromosome Location	chr6:144860208-144860209
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs4428521	0.86[AFR][1000 genomes]
rs6923086	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7758990	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496997	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496999	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9497000	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9497001	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9497002	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9497007	0.91[AFR][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	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144803400-144869800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:144807400-144904000	Weak transcription	Brain Substantia Nigra	brain
3	chr6:144812400-144881000	Weak transcription	Stomach Mucosa	stomach
4	chr6:144812600-144869800	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:144815200-144881000	Weak transcription	NHEK	skin
6	chr6:144816600-144881400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:144821200-144861000	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:144829800-144863800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:144831400-144879000	Strong transcription	Primary B cells from cord blood	blood
10	chr6:144832400-144862200	Weak transcription	Small Intestine	intestine
11	chr6:144833800-144868200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr6:144837200-144880800	Weak transcription	Brain Angular Gyrus	brain
13	chr6:144844400-144861400	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr6:144844400-144870000	Weak transcription	Brain Hippocampus Middle	brain
15	chr6:144844600-144860800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:144850000-144864200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:144850000-144864200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr6:144850200-144877400	Weak transcription	HMEC	breast
19	chr6:144850400-144864000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr6:144850400-144864200	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:144850400-144865600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:144850400-144866000	Weak transcription	Hela-S3	cervix
23	chr6:144850400-144903200	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:144850400-144903200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:144850400-144904200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:144850600-144862200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:144850600-144863400	Weak transcription	Fetal Intestine Small	intestine
28	chr6:144850600-144863600	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:144850600-144865800	Weak transcription	NHLF	lung
30	chr6:144850600-144870800	Weak transcription	Right Ventricle	heart
31	chr6:144850600-144881600	Weak transcription	Brain Anterior Caudate	brain
32	chr6:144850800-144861000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr6:144850800-144863600	Weak transcription	Colonic Mucosa	Colon
34	chr6:144851600-144861600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:144852200-144862000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr6:144852400-144861000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:144852400-144861000	Weak transcription	Esophagus	oesophagus
38	chr6:144852400-144861000	Weak transcription	Thymus	Thymus
39	chr6:144852400-144861400	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr6:144852400-144862000	Weak transcription	Spleen	Spleen
41	chr6:144852400-144870600	Weak transcription	Aorta	Aorta
42	chr6:144852600-144860400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:144852800-144860400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:144853000-144861600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:144853600-144863400	Weak transcription	Lung	lung
46	chr6:144853600-144896400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr6:144853800-144863600	Weak transcription	Fetal Stomach	stomach
48	chr6:144854000-144860600	Weak transcription	Stomach Smooth Muscle	stomach
49	chr6:144854000-144863400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr6:144854400-144860800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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