Variant report

Variant	rs6107051
Chromosome Location	chr20:25524497-25524498
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	chr20:25524006..25525778-chr20:25527051..25529614,2	MCF-7	breast:
2	chr20:25524378..25525990-chr20:25604731..25606396,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170191	Chromatin interaction
ENSG00000213742	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1119163	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16987764	0.83[ASN][1000 genomes]
rs1985403	1.00[ASN][1000 genomes]
rs2009090	0.83[ASN][1000 genomes]
rs4597609	0.83[ASN][1000 genomes]
rs4813575	1.00[ASN][1000 genomes]
rs4815447	0.83[ASN][1000 genomes]
rs57199512	0.83[ASN][1000 genomes]
rs6037229	0.83[ASN][1000 genomes]
rs6037230	0.83[ASN][1000 genomes]
rs6050859	0.83[ASN][1000 genomes]
rs6107062	1.00[ASN][1000 genomes]
rs6107064	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6107072	0.83[ASN][1000 genomes]
rs6115190	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6115230	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6115239	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6115240	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6115244	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6115261	0.83[ASN][1000 genomes]
rs6115262	0.83[ASN][1000 genomes]
rs6115270	0.83[ASN][1000 genomes]
rs6115272	0.83[ASN][1000 genomes]
rs6115273	0.83[ASN][1000 genomes]
rs6115275	0.83[ASN][1000 genomes]
rs61672495	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6515674	1.00[ASN][1000 genomes]
rs7268237	1.00[ASN][1000 genomes]
rs7268489	0.83[ASN][1000 genomes]
rs7273102	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7273313	0.83[ASN][1000 genomes]
rs7274511	0.83[ASN][1000 genomes]
rs7363318	0.80[AFR][1000 genomes]
rs8118180	0.83[ASN][1000 genomes]
rs8123585	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9808606	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9917437	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067379	chr20:25355484-25593240	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats 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 target site	24 gene(s)	inside rSNPs	diseases
2	nsv1060591	chr20:25388781-25628750	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv544223	chr20:25388781-25628750	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1067441	chr20:25397566-25615439	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv912828	chr20:25433015-25595175	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1062452	chr20:25438025-25590278	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv1066066	chr20:25439367-25588016	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv544224	chr20:25439367-25588016	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv912829	chr20:25444242-25595175	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	nsv912830	chr20:25449945-25595175	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv912831	chr20:25449945-25595868	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv994976	chr20:25466406-25593286	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv534623	chr20:25466406-25593296	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
14	nsv1062765	chr20:25466482-25556751	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv544225	chr20:25466482-25556751	Genic enhancers Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
16	esv2762069	chr20:25506582-25619528	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 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	chr20:25498200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr20:25517800-25554600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr20:25518800-25530200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr20:25520000-25532000	Weak transcription	Dnd41	blood
5	chr20:25520200-25529000	Weak transcription	Stomach Mucosa	stomach
6	chr20:25520400-25525000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr20:25520600-25527400	Weak transcription	Lung	lung
8	chr20:25520600-25528800	Weak transcription	Gastric	stomach
9	chr20:25520800-25524800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr20:25521000-25530200	Weak transcription	Brain Germinal Matrix	brain
11	chr20:25521200-25529200	Weak transcription	Placenta	Placenta
12	chr20:25521200-25530600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr20:25521400-25524800	Weak transcription	Fetal Kidney	kidney
14	chr20:25521400-25525000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr20:25521400-25525000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr20:25521400-25525000	Weak transcription	Brain Substantia Nigra	brain
17	chr20:25521400-25525000	Weak transcription	Fetal Heart	heart
18	chr20:25521400-25525000	Weak transcription	Fetal Muscle Leg	muscle
19	chr20:25521400-25525200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr20:25521400-25525200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr20:25521400-25525200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr20:25521400-25525200	Weak transcription	Brain Anterior Caudate	brain
23	chr20:25521400-25525200	Weak transcription	Fetal Stomach	stomach
24	chr20:25521400-25525400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr20:25521400-25525800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr20:25521400-25525800	Weak transcription	Brain Hippocampus Middle	brain
27	chr20:25521400-25525800	Enhancers	Osteobl	bone
28	chr20:25521400-25529200	Weak transcription	Ovary	ovary
29	chr20:25521400-25530000	Weak transcription	HSMM	muscle
30	chr20:25521400-25532200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr20:25521400-25534200	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr20:25521600-25525000	Weak transcription	Stomach Smooth Muscle	stomach
33	chr20:25521600-25526000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr20:25521600-25530200	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr20:25521600-25565000	Weak transcription	Aorta	Aorta
36	chr20:25521800-25525200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr20:25522000-25524800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr20:25522000-25524800	Weak transcription	Fetal Brain Female	brain
39	chr20:25522000-25524800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr20:25522000-25525200	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr20:25522000-25530000	Weak transcription	Colon Smooth Muscle	Colon
42	chr20:25522400-25526000	Enhancers	NHLF	lung
43	chr20:25522400-25526400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr20:25522800-25524800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr20:25522800-25525000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr20:25522800-25528800	Weak transcription	Spleen	Spleen
47	chr20:25523000-25525000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr20:25523000-25525200	Weak transcription	Fetal Thymus	thymus
49	chr20:25523000-25527400	Weak transcription	Pancreas	Pancrea
50	chr20:25523000-25529000	Weak transcription	Fetal Intestine Large	intestine

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