Variant report

Variant	rs28566082
Chromosome Location	chr1:225608772-225608773
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:225607872..225610815-chr1:225614150..225617627,4	MCF-7	breast:
2	chr1:225605937..225609657-chr1:225612868..225616965,5	MCF-7	breast:
3	chr1:225586897..225589752-chr1:225607136..225609975,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143815	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12061268	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12071961	0.83[ASN][1000 genomes]
rs12072005	0.83[ASN][1000 genomes]
rs12081774	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12088235	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs12097737	0.83[AFR][1000 genomes];1.00[ASN][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	nsv832714	chr1:225592333-225805396	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225582200-225610400	Strong transcription	Fetal Thymus	thymus
2	chr1:225584200-225610600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:225584800-225609800	Strong transcription	Dnd41	blood
4	chr1:225584800-225610400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:225585000-225609800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr1:225585000-225609800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr1:225585000-225609800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr1:225585000-225610400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr1:225585200-225609800	Strong transcription	Primary T helper cells fromperipheralblood	blood
10	chr1:225585800-225610000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr1:225585800-225610000	Strong transcription	K562	blood
12	chr1:225585800-225610400	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr1:225587800-225610000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:225588200-225610200	Strong transcription	Osteobl	bone
15	chr1:225588600-225609800	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr1:225590200-225610000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr1:225593000-225610800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:225595400-225610400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr1:225596800-225610600	Strong transcription	HSMM	muscle
20	chr1:225597600-225609000	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:225597600-225609000	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr1:225597600-225611200	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr1:225597800-225610000	Strong transcription	GM12878-XiMat	blood
24	chr1:225597800-225611200	Strong transcription	HMEC	breast
25	chr1:225597800-225611400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr1:225599200-225610600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr1:225599400-225609800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr1:225599800-225611200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr1:225599800-225614000	Weak transcription	Right Ventricle	heart
30	chr1:225601000-225608800	Genic enhancers	Primary neutrophils fromperipheralblood	blood
31	chr1:225601800-225610600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr1:225602000-225610000	Weak transcription	Stomach Mucosa	stomach
33	chr1:225602400-225609800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr1:225602600-225610000	Strong transcription	Primary B cells from peripheral blood	blood
35	chr1:225602800-225611200	Weak transcription	Pancreas	Pancrea
36	chr1:225602800-225612400	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr1:225602800-225613600	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr1:225603000-225609400	Strong transcription	Primary B cells from cord blood	blood
39	chr1:225603400-225610600	Weak transcription	Brain Substantia Nigra	brain
40	chr1:225603400-225612400	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr1:225604000-225608800	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr1:225604000-225608800	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr1:225604200-225611000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr1:225604400-225611200	Weak transcription	Fetal Heart	heart
45	chr1:225604600-225610000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr1:225605000-225609600	Strong transcription	HUVEC	blood vessel
47	chr1:225605400-225608800	Strong transcription	NHDF-Ad	bronchial
48	chr1:225605400-225610200	Strong transcription	NHLF	lung
49	chr1:225606600-225609800	Weak transcription	Small Intestine	intestine
50	chr1:225606800-225609800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links