Variant report

Variant	rs17075544
Chromosome Location	chr6:146283919-146283920
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:146247179..146250134-chr6:146283197..146284955,2	K562	blood:
2	chr6:146133507..146136027-chr6:146282188..146284857,3	K562	blood:
3	chr6:146275961..146278113-chr6:146283036..146285650,2	MCF-7	breast:
4	chr6:146051601..146058492-chr6:146282422..146286666,8	K562	blood:
5	chr6:146274057..146275916-chr6:146282783..146284444,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112425	Chromatin interaction
ENSG00000270828	Chromatin interaction
ENSG00000118496	Chromatin interaction
ENSG00000146414	Chromatin interaction
ENSG00000270638	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs17054153	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075370	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075385	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075389	0.82[ASN][1000 genomes]
rs17075400	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075404	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075411	0.82[ASN][1000 genomes]
rs17075414	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs17075446	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075465	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075499	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075501	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075511	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17075515	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17075527	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075530	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075546	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075548	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17075552	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17075584	0.94[ASN][1000 genomes]
rs17075588	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17075604	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17075636	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs17075661	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075663	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17075666	1.00[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1970304	1.00[AFR][1000 genomes]
rs6570721	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7739858	0.94[ASN][1000 genomes]
rs9497449	0.94[ASN][1000 genomes]
rs999859	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146226200-146284200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:146264800-146284600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:146267000-146284200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr6:146268800-146284200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:146268800-146284600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:146271000-146284600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:146271600-146284200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr6:146271600-146284600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:146271800-146284200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:146272000-146284000	Weak transcription	A549	lung
11	chr6:146273200-146284000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:146273200-146284200	Weak transcription	Colonic Mucosa	Colon
13	chr6:146273200-146284400	Weak transcription	Fetal Muscle Trunk	muscle
14	chr6:146273400-146284000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr6:146274000-146284200	Weak transcription	HSMM	muscle
16	chr6:146274600-146284600	Weak transcription	Placenta	Placenta
17	chr6:146275600-146284400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr6:146276200-146284000	Weak transcription	Primary B cells from peripheral blood	blood
19	chr6:146276200-146284400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr6:146276400-146284000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:146276600-146284000	Weak transcription	Fetal Intestine Large	intestine
22	chr6:146280000-146284000	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr6:146280400-146284200	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:146280600-146284200	Enhancers	Ovary	ovary
25	chr6:146281000-146284200	Enhancers	Colon Smooth Muscle	Colon
26	chr6:146281000-146284400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr6:146281200-146284000	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr6:146281400-146284000	Enhancers	Primary T helper cells PMA-I stimulated	--
29	chr6:146281400-146284200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr6:146281400-146284200	Enhancers	Brain Cingulate Gyrus	brain
31	chr6:146281800-146284000	Enhancers	Brain Hippocampus Middle	brain
32	chr6:146281800-146284400	Enhancers	Primary T killer memory cells from peripheral blood	blood
33	chr6:146281800-146284600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr6:146282000-146284000	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr6:146282000-146284000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr6:146282000-146284000	Enhancers	Fetal Lung	lung
37	chr6:146282000-146284200	Enhancers	Brain Anterior Caudate	brain
38	chr6:146282000-146284200	Enhancers	Osteobl	bone
39	chr6:146282200-146284000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:146282200-146284200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr6:146282200-146284200	Weak transcription	Fetal Thymus	thymus
42	chr6:146282400-146284000	Weak transcription	Fetal Muscle Leg	muscle
43	chr6:146282400-146284200	Weak transcription	Right Ventricle	heart
44	chr6:146282400-146284200	Enhancers	Stomach Mucosa	stomach
45	chr6:146282400-146284400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
46	chr6:146282400-146284400	Enhancers	Fetal Heart	heart
47	chr6:146282400-146284400	Weak transcription	Left Ventricle	heart
48	chr6:146282400-146284600	Weak transcription	Esophagus	oesophagus
49	chr6:146282400-146284600	Weak transcription	Lung	lung
50	chr6:146282400-146284600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links