Variant report

Variant	rs13225575
Chromosome Location	chr7:7722392-7722393
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7720780..7722829-chr7:8008432..8010921,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000233108	Chromatin interaction
ENSG00000106415	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10251718	1.00[JPT][hapmap]
rs12702629	1.00[ASN][1000 genomes]
rs12702632	1.00[ASN][1000 genomes]
rs12702633	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13227585	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13227675	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13227682	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13229887	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13239455	0.94[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13242410	0.89[CEU][hapmap]
rs17169196	1.00[JPT][hapmap]
rs17524233	1.00[JPT][hapmap]
rs17545831	1.00[ASN][1000 genomes]
rs17545935	0.89[CEU][hapmap]
rs17547731	1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2024374	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28915992	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28916005	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34302387	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34674816	1.00[ASN][1000 genomes]
rs34820918	1.00[ASN][1000 genomes]
rs34972393	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35202374	1.00[ASN][1000 genomes]
rs35278933	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs36130255	1.00[ASN][1000 genomes]
rs59693264	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62432582	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62434910	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6463702	1.00[JPT][hapmap]
rs6962939	1.00[JPT][hapmap]
rs6964593	1.00[JPT][hapmap]
rs6974820	0.88[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6980052	1.00[JPT][hapmap]
rs7789164	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7793870	0.89[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7796049	0.83[CEU][hapmap]

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	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
2	nsv606042	chr7:7427535-7876466	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv887477	chr7:7531819-7810122	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
5	nsv8043	chr7:7589195-7862802	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv606044	chr7:7652372-7727101	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
7	nsv887478	chr7:7670718-7917360	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
8	nsv887479	chr7:7681131-7779091	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv887480	chr7:7681131-7917360	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	nsv887481	chr7:7681576-7779324	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv887482	chr7:7682439-7785047	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	nsv887483	chr7:7682439-7798217	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	nsv887484	chr7:7692483-7769363	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv887485	chr7:7692483-7917360	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
15	nsv606045	chr7:7704889-7755491	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv887486	chr7:7712498-7785047	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7703400-7726800	Weak transcription	Brain Germinal Matrix	brain
2	chr7:7704400-7726400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr7:7706800-7743200	Weak transcription	Gastric	stomach
4	chr7:7708600-7738600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr7:7711600-7726400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr7:7714400-7722600	Weak transcription	Thymus	Thymus
7	chr7:7715800-7722600	Weak transcription	Fetal Muscle Leg	muscle
8	chr7:7715800-7722600	Weak transcription	Pancreas	Pancrea
9	chr7:7715800-7726400	Weak transcription	Aorta	Aorta
10	chr7:7715800-7728800	Weak transcription	Right Ventricle	heart
11	chr7:7715800-7736400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr7:7716000-7724000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr7:7716000-7726400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr7:7716000-7727000	Weak transcription	Left Ventricle	heart
15	chr7:7716000-7733400	Weak transcription	Esophagus	oesophagus
16	chr7:7716000-7735200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr7:7716000-7738400	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr7:7717800-7722600	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr7:7717800-7749000	Weak transcription	Fetal Intestine Small	intestine
20	chr7:7718000-7727800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr7:7718000-7731400	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr7:7719400-7722600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr7:7719400-7722800	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr7:7720400-7723000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr7:7720800-7722600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr7:7720800-7722600	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr7:7720800-7722800	Enhancers	GM12878-XiMat	blood
28	chr7:7720800-7722800	Enhancers	Hela-S3	cervix
29	chr7:7720800-7723000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
30	chr7:7720800-7723000	Enhancers	Dnd41	blood
31	chr7:7721000-7722600	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr7:7721000-7722800	Active TSS	Stomach Smooth Muscle	stomach
33	chr7:7721000-7723000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr7:7721200-7722400	Weak transcription	Fetal Brain Female	brain
35	chr7:7721200-7722600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr7:7721200-7722600	Weak transcription	Fetal Brain Male	brain
37	chr7:7721200-7722600	Weak transcription	Psoas Muscle	Psoas
38	chr7:7721200-7723000	Enhancers	Brain Angular Gyrus	brain
39	chr7:7721200-7723000	Enhancers	Brain Anterior Caudate	brain
40	chr7:7721200-7723000	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr7:7721200-7726200	Weak transcription	K562	blood
42	chr7:7721200-7727600	Weak transcription	Primary hematopoietic stem cells	blood
43	chr7:7721200-7734800	Weak transcription	Colon Smooth Muscle	Colon
44	chr7:7721400-7722600	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr7:7721400-7722800	Enhancers	Primary T cells from cord blood	blood
46	chr7:7721400-7723000	Enhancers	Liver	Liver
47	chr7:7721400-7723200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr7:7721400-7726400	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr7:7721400-7733000	Weak transcription	Osteobl	bone
50	chr7:7721600-7722400	Weak transcription	Skeletal Muscle Male	skeletal muscle

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