Variant report

Variant	rs59812056
Chromosome Location	chr19:39072162-39072163
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:39070635..39073328-chr19:39076907..39078463,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10404936	0.84[AFR][1000 genomes]
rs10408694	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10853716	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1468571	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1966385	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1966387	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4802617	0.82[EUR][1000 genomes]
rs4802618	0.83[AFR][1000 genomes]
rs61435613	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6508808	0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6508809	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7254175	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7254460	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1063471	chr19:38734744-39148392	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	73 gene(s)	inside rSNPs	diseases
2	nsv470140	chr19:38840139-39119494	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv911663	chr19:38899548-39101879	Strong transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	nsv833824	chr19:38914618-39084758	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv911665	chr19:38924814-39101879	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
6	nsv833826	chr19:38945106-39184547	Strong transcription Genic enhancers Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
7	nsv833827	chr19:38993054-39184547	Transcr. at gene 5' and 3' Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
8	nsv1058902	chr19:39025940-39078574	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv1064490	chr19:39029788-39078574	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
10	nsv521114	chr19:39068641-39075392	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38985200-39081800	Weak transcription	Psoas Muscle	Psoas
2	chr19:39036000-39076400	Weak transcription	Brain Substantia Nigra	brain
3	chr19:39053200-39077800	Weak transcription	Brain Hippocampus Middle	brain
4	chr19:39053200-39086800	Weak transcription	Brain Angular Gyrus	brain
5	chr19:39053200-39086800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr19:39053400-39075400	Weak transcription	Brain Anterior Caudate	brain
7	chr19:39056400-39086400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr19:39056800-39075400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr19:39056800-39077800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr19:39057200-39085200	Strong transcription	Fetal Muscle Leg	muscle
11	chr19:39057400-39076800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr19:39057800-39076600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr19:39058400-39081800	Weak transcription	Adipose Nuclei	Adipose
14	chr19:39061800-39079000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr19:39062800-39072200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr19:39064000-39076600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr19:39064200-39086400	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr19:39066800-39074200	Weak transcription	Spleen	Spleen
19	chr19:39067000-39072200	Weak transcription	Fetal Stomach	stomach
20	chr19:39067000-39075600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr19:39067000-39086600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr19:39068000-39072600	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr19:39068200-39079400	Strong transcription	Fetal Muscle Trunk	muscle
24	chr19:39069200-39079800	Strong transcription	Skeletal Muscle Male	skeletal muscle
25	chr19:39069800-39081800	Strong transcription	Skeletal Muscle Female	skeletal muscle
26	chr19:39070400-39072600	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr19:39070400-39078000	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr19:39070600-39076600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr19:39070600-39078000	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr19:39070600-39078000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr19:39070600-39078000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr19:39070600-39082600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr19:39070600-39083800	Weak transcription	Placenta	Placenta
34	chr19:39070600-39086200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr19:39070600-39100000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr19:39070800-39074400	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr19:39070800-39078400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr19:39071000-39073400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr19:39071200-39072200	Weak transcription	HSMMtube	muscle
40	chr19:39071200-39075400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr19:39071200-39076600	Weak transcription	Esophagus	oesophagus
42	chr19:39071200-39086000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr19:39071400-39074400	Weak transcription	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links