Variant report

Variant	rs10852847
Chromosome Location	chr17:17094539-17094540
allele	G/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:4)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:17093441..17095479-chr17:17108038..17109753,2	MCF-7	breast:
2	chr17:17084528..17086994-chr17:17091747..17094642,2	K562	blood:
3	chr17:17092917..17095538-chr17:17100650..17103433,2	MCF-7	breast:
4	chr17:17088597..17090779-chr17:17091806..17094698,3	K562	blood:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C17orf84-1	chr17:17091982-17095962	ENSG00000259850.1
2	lnc-C17orf84-1	chr17:17093701-17095957	NONHSAT146066

No data

Variant related genes	Relation type
ENSG00000263624	Chromatin interaction
ENSG00000179598	Chromatin interaction
ENSG00000133030	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11078374	1.00[CHB][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11078376	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11867506	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11867932	1.00[CHB][hapmap]
rs11871902	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs171394	1.00[CHB][hapmap]
rs1974721	0.85[EUR][1000 genomes]
rs2090018	1.00[ASN][1000 genomes]
rs2271520	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2349646	1.00[ASN][1000 genomes]
rs28461224	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4247118	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4247120	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4275914	1.00[ASN][1000 genomes]
rs4514740	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4985696	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4985701	1.00[ASN][1000 genomes]
rs4985702	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4985717	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4985740	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs4985746	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4985778	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6502563	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7206981	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7207485	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7208929	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7208973	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7217091	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7220827	1.00[CHB][hapmap]
rs7221842	1.00[CHB][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7222311	1.00[ASN][1000 genomes]
rs8064550	1.00[ASN][1000 genomes]
rs8072184	1.00[CHB][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8073842	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs8079563	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9893911	1.00[ASN][1000 genomes]
rs9898995	1.00[ASN][1000 genomes]
rs9908767	1.00[ASN][1000 genomes]
rs9914671	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[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	nsv907728	chr17:17013189-17095487	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv833380	chr17:17088416-17241206	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17056800-17095000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr17:17076200-17094600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr17:17076600-17104600	Weak transcription	K562	blood
4	chr17:17084400-17095200	Weak transcription	Fetal Kidney	kidney
5	chr17:17084800-17094800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr17:17084800-17094800	Weak transcription	Fetal Brain Male	brain
7	chr17:17085600-17094800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr17:17086400-17095200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr17:17086400-17104800	Weak transcription	Brain Substantia Nigra	brain
10	chr17:17086400-17106600	Weak transcription	Colonic Mucosa	Colon
11	chr17:17086600-17094800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr17:17087200-17094800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr17:17087600-17095400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr17:17087800-17094800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr17:17089400-17095200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr17:17089600-17094800	Strong transcription	Primary B cells from peripheral blood	blood
17	chr17:17089600-17096600	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr17:17090200-17107000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr17:17090200-17107400	Weak transcription	Small Intestine	intestine
20	chr17:17090600-17095600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr17:17090800-17106600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr17:17090800-17106600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr17:17090800-17107200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr17:17091200-17104400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr17:17091400-17095200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr17:17091400-17104000	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr17:17091600-17094800	Weak transcription	Brain Angular Gyrus	brain
28	chr17:17091800-17107600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr17:17092200-17094800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr17:17092200-17095200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr17:17092200-17095200	Weak transcription	Brain Hippocampus Middle	brain
32	chr17:17092200-17105400	Weak transcription	Gastric	stomach
33	chr17:17092400-17095400	Weak transcription	GM12878-XiMat	blood
34	chr17:17092400-17104200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr17:17092400-17105600	Weak transcription	Brain Germinal Matrix	brain
36	chr17:17092600-17094600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr17:17092600-17094600	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr17:17092600-17094600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr17:17092600-17094800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr17:17092600-17095200	Weak transcription	Fetal Intestine Large	intestine
41	chr17:17092800-17095600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr17:17092800-17096200	Enhancers	Colon Smooth Muscle	Colon
43	chr17:17093000-17094800	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr17:17093000-17095000	Genic enhancers	NHEK	skin
45	chr17:17093000-17095200	Enhancers	Spleen	Spleen
46	chr17:17093000-17095400	Enhancers	Rectal Smooth Muscle	rectum
47	chr17:17093000-17095600	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr17:17093000-17104800	Weak transcription	Hela-S3	cervix
49	chr17:17093200-17094800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr17:17093200-17094800	Genic enhancers	Fetal Muscle Leg	muscle

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