Variant report

Variant	rs11072804
Chromosome Location	chr15:79078486-79078487
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11072803	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11072806	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11631955	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11632102	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11634042	0.84[AMR][1000 genomes]
rs11634450	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11638321	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11639044	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11856536	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11858210	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12050525	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12592721	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12899147	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12903203	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1825087	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1994016	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2277545	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2277546	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28610385	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2904220	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3825807	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4886592	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4887113	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7173267	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7177699	0.93[AMR][1000 genomes];0.85[EUR][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	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
2	nsv904431	chr15:79006442-79155088	Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv33573	chr15:79053484-79293881	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv977739	chr15:79062099-79080757	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv904432	chr15:79066932-79175813	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79054000-79083200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:79058000-79090000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr15:79060800-79078600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr15:79061000-79078800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr15:79061000-79078800	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:79061000-79080000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:79061600-79080400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr15:79062200-79080200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr15:79063800-79078600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:79069000-79080000	Weak transcription	Osteobl	bone
11	chr15:79069200-79090200	Weak transcription	NHDF-Ad	bronchial
12	chr15:79071200-79078800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr15:79071200-79079800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr15:79071200-79080200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:79071400-79078600	Weak transcription	Fetal Brain Female	brain
16	chr15:79071400-79080200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr15:79072000-79080000	Weak transcription	NHLF	lung
18	chr15:79072000-79096600	Weak transcription	Brain Substantia Nigra	brain
19	chr15:79072000-79096800	Weak transcription	Colon Smooth Muscle	Colon
20	chr15:79072200-79078600	Weak transcription	Ovary	ovary
21	chr15:79072200-79080200	Weak transcription	Lung	lung
22	chr15:79072200-79082000	Weak transcription	Right Atrium	heart
23	chr15:79072800-79078800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr15:79072800-79080000	Weak transcription	Aorta	Aorta
25	chr15:79072800-79082000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:79072800-79089800	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:79072800-79102400	Weak transcription	Fetal Kidney	kidney
28	chr15:79073800-79080200	Weak transcription	Spleen	Spleen
29	chr15:79074000-79078800	Weak transcription	Left Ventricle	heart
30	chr15:79074200-79078600	Weak transcription	Fetal Muscle Trunk	muscle
31	chr15:79074200-79080200	Weak transcription	Right Ventricle	heart
32	chr15:79074800-79083000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr15:79075600-79082200	Weak transcription	Fetal Brain Male	brain
34	chr15:79076400-79090400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr15:79076400-79090400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:79076400-79090800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr15:79076800-79078600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr15:79077200-79078600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr15:79077200-79080200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr15:79077200-79081400	Strong transcription	Fetal Lung	lung
41	chr15:79077200-79084800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:79077200-79085200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr15:79077200-79089800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr15:79077200-79096600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:79077400-79078600	Weak transcription	HSMMtube	muscle
46	chr15:79077400-79079000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:79077400-79089000	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr15:79077600-79078600	Weak transcription	Adipose Nuclei	Adipose
49	chr15:79077600-79084200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr15:79077600-79087800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links