Variant report

Variant	rs17014337
Chromosome Location	chr1:209527465-209527466
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:209424300..209425262-chr1:209527340..209528354,4	MCF-7	breast:
2	chr1:209524634..209532045-chr1:209599866..209610404,18	MCF-7	breast:
3	chr1:209522778..209525739-chr1:209526062..209527783,2	MCF-7	breast:
4	chr1:209421771..209422737-chr1:209527455..209528257,2	K562	blood:
5	chr1:209527253..209544360-chr1:209599669..209610889,45	MCF-7	breast:
6	chr1:209501366..209503454-chr1:209524824..209527553,2	K562	blood:
7	chr1:209421788..209422593-chr1:209527401..209528229,3	MCF-7	breast:
8	chr1:209526627..209529456-chr1:209583930..209587370,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230937	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1006316	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1006317	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10494920	0.81[AMR][1000 genomes]
rs10494921	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11811038	0.84[CHB][hapmap];0.90[JPT][hapmap]
rs12135550	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs1354850	0.90[ASN][1000 genomes]
rs1354852	0.90[ASN][1000 genomes]
rs1354853	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1395753	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1507331	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1507336	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17014320	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17014323	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17014370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17014375	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17014395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17014396	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1857967	0.92[CHB][hapmap]
rs2356719	1.00[YRI][hapmap]
rs4844473	0.92[ASN][1000 genomes]
rs4844807	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4844809	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4844815	0.91[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4844820	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4844821	0.92[ASN][1000 genomes]
rs55684110	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58017268	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60460414	0.89[ASN][1000 genomes]
rs60534728	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6674793	0.90[ASN][1000 genomes]
rs6681466	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74155473	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7516864	0.91[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs7548184	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[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	nsv832481	chr1:209371276-209540333	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv832492	chr1:209383771-209589312	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:209522800-209527600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:209522800-209529200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:209523000-209529000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:209523200-209527600	Weak transcription	Fetal Kidney	kidney
5	chr1:209523200-209527800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr1:209523200-209528000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr1:209523400-209529000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:209523800-209527800	Weak transcription	Osteobl	bone
9	chr1:209524800-209528000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr1:209525000-209527600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr1:209525000-209527600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:209525000-209528800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr1:209525200-209527600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr1:209525200-209529800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr1:209526400-209528000	Enhancers	Fetal Brain Male	brain
16	chr1:209526400-209545600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr1:209527000-209529000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:209527000-209530800	Enhancers	HMEC	breast
19	chr1:209527200-209528400	Enhancers	Fetal Stomach	stomach
20	chr1:209527200-209528800	Enhancers	NHEK	skin
21	chr1:209527200-209531000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr1:209527400-209527800	Enhancers	Esophagus	oesophagus
23	chr1:209527400-209527800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr1:209527400-209527800	Enhancers	Fetal Lung	lung
25	chr1:209527400-209527800	Enhancers	Placenta	Placenta
26	chr1:209527400-209528000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr1:209527400-209528000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr1:209527400-209528000	Enhancers	Brain Anterior Caudate	brain
29	chr1:209527400-209528000	Enhancers	Fetal Muscle Leg	muscle
30	chr1:209527400-209528200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:209527400-209528200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr1:209527400-209528200	Enhancers	Muscle Satellite Cultured Cells	--
33	chr1:209527400-209528200	Enhancers	Colon Smooth Muscle	Colon
34	chr1:209527400-209528200	Enhancers	Fetal Heart	heart
35	chr1:209527400-209528200	Enhancers	HSMM	muscle
36	chr1:209527400-209528400	Enhancers	Placenta Amnion	Placenta Amnion
37	chr1:209527400-209529400	Enhancers	iPS-20b Cell Line	embryonic stem cell
38	chr1:209527400-209529400	Enhancers	Hela-S3	cervix
39	chr1:209527400-209530400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr1:209527400-209530800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr1:209527400-209530800	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr1:209527400-209530800	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links