Variant report

Variant	rs62025697
Chromosome Location	chr15:99767995-99767996
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:99761212..99763784-chr15:99766463..99769175,2	MCF-7	breast:
2	chr15:99755485..99757956-chr15:99767073..99768603,2	MCF-7	breast:
3	chr15:99767475..99769524-chr15:99789564..99792407,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103852	Chromatin interaction
ENSG00000168904	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10152456	0.89[ASN][1000 genomes]
rs10152794	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12591132	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12593449	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1567417	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1567418	0.89[ASN][1000 genomes]
rs2084900	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2902154	0.90[ASN][1000 genomes]
rs55909409	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56315393	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs56341787	0.86[ASN][1000 genomes]
rs56364603	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62023767	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7170360	0.87[ASN][1000 genomes]
rs7175165	0.87[ASN][1000 genomes]
rs7178124	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8025136	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8028374	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8029886	0.89[ASN][1000 genomes]
rs8042439	0.89[ASN][1000 genomes]
rs8043311	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531079	chr15:98907913-99878547	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv1039575	chr15:98982045-99924685	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
3	nsv869529	chr15:99416774-99903351	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv1055008	chr15:99477144-100019861	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1045124	chr15:99504843-99847210	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
6	nsv1038870	chr15:99510479-99768374	Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers 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
7	nsv904543	chr15:99513231-99991506	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
8	nsv533926	chr15:99519820-99997114	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
9	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
10	nsv1051782	chr15:99621061-99792967	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
11	nsv916822	chr15:99621061-99878564	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS 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	30 gene(s)	inside rSNPs	diseases
12	nsv949203	chr15:99621061-99932797	Strong transcription Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS 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	31 gene(s)	inside rSNPs	diseases
13	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
14	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
15	nsv570716	chr15:99629901-99916332	Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
16	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
17	nsv1052528	chr15:99736977-99874210	Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
18	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
19	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer 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	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:99673200-99789400	Weak transcription	Small Intestine	intestine
2	chr15:99724400-99769600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:99733400-99787400	Weak transcription	NHEK	skin
4	chr15:99749800-99789400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr15:99750000-99789400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:99751800-99768600	Strong transcription	Fetal Muscle Leg	muscle
7	chr15:99754400-99768000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:99754400-99768600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr15:99754400-99768800	Strong transcription	Fetal Intestine Large	intestine
10	chr15:99754800-99769000	Strong transcription	Adipose Nuclei	Adipose
11	chr15:99755400-99768800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
12	chr15:99755600-99768000	Strong transcription	Liver	Liver
13	chr15:99756600-99768800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:99756600-99769000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr15:99756600-99789400	Weak transcription	Monocytes-CD14+_RO01746	blood
16	chr15:99756800-99768800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:99756800-99768800	Strong transcription	Fetal Muscle Trunk	muscle
18	chr15:99756800-99769000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr15:99757000-99768200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:99757600-99768800	Strong transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:99757800-99768600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr15:99757800-99768600	Strong transcription	Fetal Stomach	stomach
23	chr15:99757800-99768800	Strong transcription	Cortex derived primary cultured neurospheres	brain
24	chr15:99757800-99769000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:99758000-99768800	Strong transcription	Stomach Smooth Muscle	stomach
26	chr15:99758200-99769000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:99758400-99768000	Weak transcription	HMEC	breast
28	chr15:99758600-99789400	Weak transcription	Brain Substantia Nigra	brain
29	chr15:99758800-99768400	Weak transcription	Brain Angular Gyrus	brain
30	chr15:99759200-99769800	Weak transcription	Brain Anterior Caudate	brain
31	chr15:99759200-99788400	Weak transcription	Fetal Thymus	thymus
32	chr15:99759400-99769200	Weak transcription	Primary T cells from cord blood	blood
33	chr15:99759400-99781800	Weak transcription	Spleen	Spleen
34	chr15:99759400-99788600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr15:99759400-99788600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr15:99760200-99768600	Strong transcription	Aorta	Aorta
37	chr15:99761000-99778400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr15:99761400-99771000	Weak transcription	GM12878-XiMat	blood
39	chr15:99761400-99781800	Weak transcription	Pancreas	Pancrea
40	chr15:99761400-99788400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr15:99761800-99769800	Weak transcription	Thymus	Thymus
42	chr15:99761800-99772800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr15:99762000-99768800	Strong transcription	Rectal Smooth Muscle	rectum
44	chr15:99762000-99780400	Weak transcription	Esophagus	oesophagus
45	chr15:99762400-99768600	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr15:99762400-99772800	Weak transcription	A549	lung
47	chr15:99762600-99768000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr15:99762600-99789400	Weak transcription	Gastric	stomach
49	chr15:99762800-99774800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr15:99763200-99768800	Strong transcription	Left Ventricle	heart

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