Variant report

Variant	rs2909213
Chromosome Location	chr17:66460315-66460316
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:66459711..66462388-chr17:66755593..66757807,2	K562	blood:
2	chr17:66459308..66461889-chr17:66462514..66465217,2	K562	blood:
3	chr17:66458968..66465648-chr17:66506510..66510180,10	MCF-7	breast:
4	chr17:66458992..66460952-chr17:66470688..66473456,3	MCF-7	breast:
5	chr17:66241114..66243541-chr17:66457645..66460570,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108946	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11868680	0.85[CHB][hapmap];0.85[ASN][1000 genomes]
rs1808335	0.84[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2111508	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2302783	0.95[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs2909207	0.89[CEU][hapmap]
rs2909209	0.90[AFR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2909211	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2909216	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2909217	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2909218	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2909220	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2909221	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2952277	0.81[EUR][1000 genomes]
rs2952279	0.81[EUR][1000 genomes]
rs2952284	0.84[EUR][1000 genomes]
rs2952286	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2952289	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2952290	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2952294	0.83[CEU][hapmap];0.95[CHB][hapmap];0.92[YRI][hapmap];1.00[AFR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2952295	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2952296	0.84[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.98[AFR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6501468	0.94[CEU][hapmap]
rs71378928	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs883541	0.89[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.84[EUR][1000 genomes];0.93[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	nsv833523	chr17:66343323-66510461	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:66453600-66462000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr17:66454600-66464000	Weak transcription	Aorta	Aorta
3	chr17:66454600-66465200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr17:66454600-66470400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr17:66454800-66462000	Weak transcription	Small Intestine	intestine
6	chr17:66454800-66462200	Weak transcription	Placenta	Placenta
7	chr17:66454800-66463600	Weak transcription	Right Atrium	heart
8	chr17:66456800-66470400	Weak transcription	Right Ventricle	heart
9	chr17:66457800-66460400	Enhancers	Fetal Muscle Leg	muscle
10	chr17:66457800-66462000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr17:66458000-66462000	Weak transcription	Left Ventricle	heart
12	chr17:66459000-66461000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr17:66459200-66461400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr17:66459200-66461400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr17:66459200-66461600	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr17:66459200-66461800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr17:66459200-66461800	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr17:66459200-66461800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr17:66459200-66462000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr17:66459200-66462000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr17:66459200-66462000	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr17:66459200-66462000	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr17:66459200-66462000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr17:66459200-66462000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr17:66459200-66462000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr17:66459200-66462000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr17:66459200-66462000	Weak transcription	Primary B cells from peripheral blood	blood
28	chr17:66459200-66462000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr17:66459200-66462000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr17:66459200-66462000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr17:66459200-66462000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr17:66459200-66462000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr17:66459200-66462000	Weak transcription	Adipose Nuclei	Adipose
34	chr17:66459200-66462000	Weak transcription	Brain Anterior Caudate	brain
35	chr17:66459200-66462000	Weak transcription	Brain Cingulate Gyrus	brain
36	chr17:66459200-66462000	Weak transcription	Brain Hippocampus Middle	brain
37	chr17:66459200-66462000	Weak transcription	Esophagus	oesophagus
38	chr17:66459200-66462000	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr17:66459200-66462000	Weak transcription	Hela-S3	cervix
40	chr17:66459200-66462000	Weak transcription	HMEC	breast
41	chr17:66459200-66462000	Weak transcription	NHDF-Ad	bronchial
42	chr17:66459200-66462000	Weak transcription	NHLF	lung
43	chr17:66459200-66462200	Weak transcription	Fetal Muscle Trunk	muscle
44	chr17:66459200-66463000	Weak transcription	HSMMtube	muscle
45	chr17:66459200-66464000	Weak transcription	HSMM	muscle
46	chr17:66459200-66466200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr17:66459400-66461800	Weak transcription	Dnd41	blood
48	chr17:66459400-66462000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr17:66459400-66462000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr17:66459400-66462000	Weak transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links