Variant report

Variant	rs12905362
Chromosome Location	chr15:74533379-74533380
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74508820..74512386-chr15:74531796..74535260,3	MCF-7	breast:
2	chr15:74531244..74533706-chr15:74533938..74535590,2	K562	blood:
3	chr15:74526641..74528980-chr15:74533279..74535545,2	K562	blood:

Variant related genes	Relation type
ENSG00000259264	Chromatin interaction
ENSG00000140481	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11629834	0.88[ASN][1000 genomes]
rs11632233	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11633101	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11633321	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11638601	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11639316	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12898529	0.87[ASN][1000 genomes]
rs12904523	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12905224	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12905234	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12913344	0.89[ASN][1000 genomes]
rs12913651	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1564784	0.86[ASN][1000 genomes]
rs168432	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs189497	0.89[ASN][1000 genomes]
rs351153	0.89[ASN][1000 genomes]
rs351174	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs351180	0.88[ASN][1000 genomes]
rs351181	0.88[ASN][1000 genomes]
rs3848162	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67882706	0.82[ASN][1000 genomes]
rs901128	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833053	chr15:74360156-74555140	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv904346	chr15:74458181-74548773	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv904347	chr15:74462629-74537101	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv904348	chr15:74462629-74542686	Genic enhancers Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv471253	chr15:74489207-74545148	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv904349	chr15:74500105-74542686	Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904350	chr15:74500105-74548773	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74528600-74536800	Weak transcription	Fetal Thymus	thymus
2	chr15:74529200-74535400	Weak transcription	Fetal Kidney	kidney
3	chr15:74530800-74535800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:74531000-74535400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr15:74531000-74535600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:74531000-74536000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr15:74531000-74536000	Enhancers	Fetal Brain Male	brain
8	chr15:74531000-74536200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr15:74531200-74533400	Enhancers	NH-A	brain
10	chr15:74531200-74534600	Enhancers	Fetal Muscle Leg	muscle
11	chr15:74531200-74535200	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr15:74531400-74533600	Enhancers	Brain Hippocampus Middle	brain
13	chr15:74531400-74533800	Enhancers	Gastric	stomach
14	chr15:74531400-74533800	Enhancers	Lung	lung
15	chr15:74531400-74533800	Enhancers	Pancreas	Pancrea
16	chr15:74531400-74535600	Enhancers	Stomach Mucosa	stomach
17	chr15:74531400-74535800	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr15:74531400-74536000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:74531400-74536000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:74531400-74536000	Enhancers	Brain Germinal Matrix	brain
21	chr15:74531400-74537600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:74531600-74533400	Enhancers	Placenta	Placenta
23	chr15:74531600-74533800	Enhancers	Brain Angular Gyrus	brain
24	chr15:74531600-74535400	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr15:74531600-74535600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr15:74531600-74535600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:74531600-74535800	Enhancers	Fetal Brain Female	brain
28	chr15:74531600-74537000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
29	chr15:74531600-74538400	Enhancers	Spleen	Spleen
30	chr15:74531800-74533400	Enhancers	Colonic Mucosa	Colon
31	chr15:74531800-74533800	Enhancers	Left Ventricle	heart
32	chr15:74531800-74535400	Enhancers	Right Atrium	heart
33	chr15:74531800-74535600	Enhancers	Fetal Heart	heart
34	chr15:74531800-74535600	Enhancers	Right Ventricle	heart
35	chr15:74531800-74535600	Enhancers	NHDF-Ad	bronchial
36	chr15:74531800-74535800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr15:74532000-74533400	Enhancers	Esophagus	oesophagus
38	chr15:74532000-74533600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr15:74532000-74533600	Enhancers	NHEK	skin
40	chr15:74532000-74533800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr15:74532000-74533800	Enhancers	Fetal Muscle Trunk	muscle
42	chr15:74532000-74534000	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr15:74532000-74534800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr15:74532000-74535200	Enhancers	Adipose Nuclei	Adipose
45	chr15:74532000-74535400	Enhancers	HMEC	breast
46	chr15:74532000-74536000	Enhancers	Fetal Intestine Small	intestine
47	chr15:74532200-74533600	Enhancers	HUVEC	blood vessel
48	chr15:74532200-74535200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr15:74532400-74537600	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr15:74532600-74533400	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