Variant report

Variant	rs334484
Chromosome Location	chr5:16530237-16530238
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:16521375..16523909-chr5:16526389..16530359,4	K562	blood:
2	chr5:16529119..16532127-chr5:16532204..16536269,4	MCF-7	breast:
3	chr5:16529383..16532195-chr5:16534622..16538676,4	MCF-7	breast:
4	chr5:16502543..16505199-chr5:16528259..16530477,2	MCF-7	breast:
5	chr5:16527956..16530319-chr5:16542721..16545847,3	K562	blood:
6	chr5:16513910..16515735-chr5:16529020..16530796,2	K562	blood:
7	chr5:16527438..16530351-chr5:16530397..16531960,2	K562	blood:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs16868758	1.00[CHD][hapmap]
rs16868760	1.00[CHD][hapmap]
rs334483	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs334493	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs403186	1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.83[YRI][hapmap];0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs431440	1.00[CEU][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs437407	1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs441908	0.90[AFR][1000 genomes];1.00[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	chr5:16523400-16540800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr5:16523600-16533800	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr5:16523600-16535400	Weak transcription	Pancreas	Pancrea
8	chr5:16523800-16539000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:16523800-16540800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr5:16524600-16531800	Weak transcription	Small Intestine	intestine
11	chr5:16524600-16533800	Weak transcription	Right Ventricle	heart
12	chr5:16525000-16540800	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:16525000-16542000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr5:16525200-16540400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr5:16525600-16539200	Weak transcription	Gastric	stomach
16	chr5:16526400-16537400	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr5:16527200-16533800	Weak transcription	Primary T cells from cord blood	blood
18	chr5:16527200-16534400	Weak transcription	Thymus	Thymus
19	chr5:16528600-16530400	Enhancers	Brain Cingulate Gyrus	brain
20	chr5:16528600-16532000	Enhancers	Fetal Intestine Large	intestine
21	chr5:16528600-16532000	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr5:16528600-16532200	Enhancers	Fetal Intestine Small	intestine
23	chr5:16528600-16532800	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr5:16528800-16530400	Enhancers	Brain Hippocampus Middle	brain
25	chr5:16528800-16530600	Enhancers	Fetal Heart	heart
26	chr5:16529000-16537000	Weak transcription	Fetal Brain Male	brain
27	chr5:16529000-16538000	Weak transcription	Fetal Brain Female	brain
28	chr5:16529600-16530400	Enhancers	Fetal Muscle Leg	muscle
29	chr5:16529600-16530400	Enhancers	Psoas Muscle	Psoas
30	chr5:16529800-16530400	Enhancers	Brain Substantia Nigra	brain
31	chr5:16529800-16530400	Enhancers	Colonic Mucosa	Colon
32	chr5:16529800-16530400	Enhancers	Left Ventricle	heart
33	chr5:16529800-16530400	Enhancers	Sigmoid Colon	Sigmoid Colon
34	chr5:16529800-16530800	Enhancers	Brain Inferior Temporal Lobe	brain
35	chr5:16529800-16532200	Enhancers	Pancreatic Islets	Pancreatic Islet
36	chr5:16530000-16530400	Enhancers	Right Atrium	heart
37	chr5:16530000-16530600	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr5:16530000-16531200	Weak transcription	Stomach Mucosa	stomach
39	chr5:16530000-16531400	Weak transcription	Brain Anterior Caudate	brain
40	chr5:16530200-16530600	Enhancers	Fetal Muscle Trunk	muscle
41	chr5:16530200-16531600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr5:16530200-16531600	Weak transcription	Brain Angular Gyrus	brain
43	chr5:16530200-16532000	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr5:16530200-16532400	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links