Variant report

Variant	rs17706853
Chromosome Location	chr5:16529941-16529942
allele	A/G
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	chr5:16527152..16530063-chr5:16533839..16538809,7	K562	blood:
2	chr5:16521375..16523909-chr5:16526389..16530359,4	K562	blood:
3	chr5:16529119..16532127-chr5:16532204..16536269,4	MCF-7	breast:
4	chr5:16529383..16532195-chr5:16534622..16538676,4	MCF-7	breast:
5	chr5:16502543..16505199-chr5:16528259..16530477,2	MCF-7	breast:
6	chr5:16527956..16530319-chr5:16542721..16545847,3	K562	blood:
7	chr5:16513910..16515735-chr5:16529020..16530796,2	K562	blood:
8	chr5:16527438..16530351-chr5:16530397..16531960,2	K562	blood:

No data

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10053746	0.80[JPT][hapmap]
rs10073468	0.83[ASN][1000 genomes]
rs12187057	0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs12187879	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1551050	0.90[CEU][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2028843	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs390435	0.84[JPT][hapmap]
rs56379171	0.83[ASN][1000 genomes]
rs6860945	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs6882868	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs7705650	0.81[ASN][1000 genomes]
rs7730689	0.90[CEU][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs9312921	0.81[ASN][1000 genomes]
rs9312922	0.88[JPT][hapmap];0.81[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	nsv881187	chr5:16514269-16654960	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16516000-16540800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr5:16519800-16531400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr5:16521600-16539600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr5:16522400-16567400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr5:16522600-16530000	Weak transcription	Right Atrium	heart
6	chr5:16523400-16540800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr5:16523600-16533800	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr5:16523600-16535400	Weak transcription	Pancreas	Pancrea
9	chr5:16523800-16539000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr5:16523800-16540800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr5:16524600-16531800	Weak transcription	Small Intestine	intestine
12	chr5:16524600-16533800	Weak transcription	Right Ventricle	heart
13	chr5:16525000-16540800	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr5:16525000-16542000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr5:16525200-16540400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr5:16525600-16539200	Weak transcription	Gastric	stomach
17	chr5:16526400-16537400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr5:16527200-16533800	Weak transcription	Primary T cells from cord blood	blood
19	chr5:16527200-16534400	Weak transcription	Thymus	Thymus
20	chr5:16528600-16530400	Enhancers	Brain Cingulate Gyrus	brain
21	chr5:16528600-16532000	Enhancers	Fetal Intestine Large	intestine
22	chr5:16528600-16532000	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr5:16528600-16532200	Enhancers	Fetal Intestine Small	intestine
24	chr5:16528600-16532800	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr5:16528800-16530400	Enhancers	Brain Hippocampus Middle	brain
26	chr5:16528800-16530600	Enhancers	Fetal Heart	heart
27	chr5:16529000-16530000	Enhancers	Stomach Mucosa	stomach
28	chr5:16529000-16537000	Weak transcription	Fetal Brain Male	brain
29	chr5:16529000-16538000	Weak transcription	Fetal Brain Female	brain
30	chr5:16529400-16530000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
31	chr5:16529600-16530200	Flanking Active TSS	Duodenum Mucosa	Duodenum
32	chr5:16529600-16530400	Enhancers	Fetal Muscle Leg	muscle
33	chr5:16529600-16530400	Enhancers	Psoas Muscle	Psoas
34	chr5:16529800-16530000	Enhancers	Brain Anterior Caudate	brain
35	chr5:16529800-16530200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr5:16529800-16530200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr5:16529800-16530200	Enhancers	Brain Angular Gyrus	brain
38	chr5:16529800-16530200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
39	chr5:16529800-16530400	Enhancers	Brain Substantia Nigra	brain
40	chr5:16529800-16530400	Enhancers	Colonic Mucosa	Colon
41	chr5:16529800-16530400	Enhancers	Left Ventricle	heart
42	chr5:16529800-16530400	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr5:16529800-16530800	Enhancers	Brain Inferior Temporal Lobe	brain
44	chr5:16529800-16532200	Enhancers	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links