Variant report

Variant	rs2414606
Chromosome Location	chr15:59011093-59011094
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:59007785..59010098-chr15:59010167..59012488,3	K562	blood:
2	chr15:59007785..59010313-chr15:59010988..59013487,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11071396	0.85[CHB][hapmap];0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11852241	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11853043	0.84[YRI][hapmap]
rs12437552	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1365772	1.00[YRI][hapmap]
rs1427280	0.96[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs17236243	0.84[CEU][hapmap];0.83[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes]
rs2114573	0.96[CHB][hapmap];0.95[JPT][hapmap]
rs2414607	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28391588	0.91[CEU][hapmap];0.83[CHB][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3933541	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs394845	0.91[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs447299	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4774309	0.96[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs655348	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs681711	0.84[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes]
rs694335	0.91[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7164954	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7168275	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7173286	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7176436	0.90[JPT][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs7179724	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7182060	0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs7183504	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8023706	0.84[CHB][hapmap];0.89[AMR][1000 genomes]
rs8027998	0.91[CEU][hapmap];0.83[CHB][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8036097	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs9646204	0.81[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
4	esv1843037	chr15:59005922-59115159	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
5	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58977200-59039200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:58983200-59016600	Weak transcription	Small Intestine	intestine
3	chr15:58986600-59016600	Weak transcription	Stomach Smooth Muscle	stomach
4	chr15:58987400-59012000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:58989800-59016800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:58990000-59023400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr15:58991800-59012200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:58992000-59015800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr15:58992000-59023000	Weak transcription	Esophagus	oesophagus
10	chr15:58992000-59023800	Weak transcription	Aorta	Aorta
11	chr15:58992400-59011600	Weak transcription	HUVEC	blood vessel
12	chr15:58992400-59012000	Weak transcription	Brain Anterior Caudate	brain
13	chr15:58992600-59016600	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr15:58992600-59021000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:58994400-59012400	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr15:58994400-59016400	Weak transcription	Adipose Nuclei	Adipose
17	chr15:58996000-59016600	Weak transcription	Colonic Mucosa	Colon
18	chr15:58996200-59016800	Weak transcription	Psoas Muscle	Psoas
19	chr15:58996600-59016600	Weak transcription	NHLF	lung
20	chr15:58996600-59016800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr15:58998400-59016600	Weak transcription	Osteobl	bone
22	chr15:58998600-59016600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr15:58998600-59016800	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr15:58999000-59013600	Weak transcription	Right Ventricle	heart
25	chr15:58999000-59023800	Weak transcription	Gastric	stomach
26	chr15:59000600-59012200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr15:59002400-59016200	Weak transcription	Left Ventricle	heart
28	chr15:59003400-59016400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr15:59003800-59012400	Strong transcription	Fetal Thymus	thymus
30	chr15:59003800-59016600	Weak transcription	NH-A	brain
31	chr15:59004000-59013000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr15:59004200-59015600	Weak transcription	Colon Smooth Muscle	Colon
33	chr15:59005200-59022400	Weak transcription	Fetal Muscle Leg	muscle
34	chr15:59005600-59021600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr15:59005600-59023000	Weak transcription	Spleen	Spleen
36	chr15:59005600-59023600	Weak transcription	NHEK	skin
37	chr15:59005800-59022800	Weak transcription	HMEC	breast
38	chr15:59005800-59025200	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr15:59006200-59023800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr15:59006200-59024000	Weak transcription	Pancreas	Pancrea
41	chr15:59006400-59013000	Weak transcription	Brain Hippocampus Middle	brain
42	chr15:59006400-59014400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr15:59006400-59016200	Weak transcription	Lung	lung
44	chr15:59006400-59016600	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr15:59006400-59016800	Weak transcription	HSMMtube	muscle
46	chr15:59006400-59017000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr15:59006400-59017000	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr15:59006400-59021600	Weak transcription	Fetal Stomach	stomach
49	chr15:59006400-59022800	Weak transcription	Fetal Intestine Small	intestine
50	chr15:59006600-59014800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links