Variant report

Variant	rs13225545
Chromosome Location	chr7:8067139-8067140
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	chr7:8058670..8060171-chr7:8065220..8067372,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs12113109	0.91[EUR][1000 genomes]
rs12702689	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13222222	0.89[ASN][1000 genomes]
rs13222718	0.91[EUR][1000 genomes]
rs13223417	0.86[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs13223995	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13237185	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13239966	0.87[ASN][1000 genomes]
rs13240739	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13245917	0.89[ASN][1000 genomes]
rs17566854	0.80[AMR][1000 genomes]
rs34059590	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34156160	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34318095	0.95[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs34438930	0.91[EUR][1000 genomes]
rs34475980	0.90[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs34746652	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34955320	0.80[AFR][1000 genomes]
rs35009545	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35044198	0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs35108922	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35143180	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35146192	0.91[EUR][1000 genomes]
rs35149843	0.91[EUR][1000 genomes]
rs35171936	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs35240411	1.00[ASN][1000 genomes]
rs35394048	0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs35425218	0.91[EUR][1000 genomes]
rs35509690	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35567393	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35627160	0.90[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs35630009	0.85[AFR][1000 genomes]
rs35641104	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36015287	0.82[ASN][1000 genomes]
rs36022646	0.96[ASN][1000 genomes]
rs36028057	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs55746128	0.80[AMR][1000 genomes]
rs56017154	0.80[AMR][1000 genomes]
rs56142807	0.80[AMR][1000 genomes]
rs6969431	0.90[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs71533384	0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs71533385	0.96[ASN][1000 genomes]
rs715377	0.93[EUR][1000 genomes]
rs73049252	0.80[AMR][1000 genomes]
rs73049256	0.80[AMR][1000 genomes]
rs73049270	0.80[AMR][1000 genomes]
rs73049276	0.80[AMR][1000 genomes]
rs73049290	0.80[AMR][1000 genomes]
rs73049293	0.80[AMR][1000 genomes]
rs73049297	0.80[AMR][1000 genomes]
rs73049300	0.80[AMR][1000 genomes]
rs73050915	0.80[AMR][1000 genomes]
rs73050929	0.80[AMR][1000 genomes]
rs73050940	0.80[AMR][1000 genomes]
rs73050951	0.80[AMR][1000 genomes]
rs73050956	0.80[AMR][1000 genomes]
rs73050958	0.80[AMR][1000 genomes]
rs73050959	0.80[AMR][1000 genomes]
rs73053544	0.80[AMR][1000 genomes]
rs7793278	0.91[EUR][1000 genomes]
rs7801299	0.90[AFR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	esv2752177	chr7:7729247-8177689	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers 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
3	nsv917172	chr7:7854632-8807385	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv3346837	chr7:7915187-8068557	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv518779	chr7:8055664-8077359	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	esv1793794	chr7:8064509-8078802	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:8036400-8077400	Weak transcription	Right Ventricle	heart
2	chr7:8036600-8074600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr7:8041600-8095000	Weak transcription	Gastric	stomach
4	chr7:8041800-8075400	Weak transcription	Brain Hippocampus Middle	brain
5	chr7:8043000-8099200	Weak transcription	Colon Smooth Muscle	Colon
6	chr7:8043600-8068400	Weak transcription	NH-A	brain
7	chr7:8044600-8074400	Weak transcription	Brain Angular Gyrus	brain
8	chr7:8046800-8074400	Weak transcription	Brain Substantia Nigra	brain
9	chr7:8047400-8075600	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr7:8047600-8108200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr7:8057200-8067600	Weak transcription	Colonic Mucosa	Colon
12	chr7:8058800-8069400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr7:8059200-8067800	ZNF genes & repeats	GM12878-XiMat	blood
14	chr7:8061200-8070000	Weak transcription	Stomach Mucosa	stomach
15	chr7:8062200-8068000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr7:8062800-8067600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr7:8063400-8067200	ZNF genes & repeats	Fetal Intestine Large	intestine
18	chr7:8063400-8068000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr7:8063600-8067400	Strong transcription	Hela-S3	cervix
20	chr7:8063600-8069000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
21	chr7:8063800-8067600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr7:8064000-8067400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr7:8064000-8067600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr7:8064000-8068000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr7:8064200-8067600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
26	chr7:8064200-8067800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr7:8064200-8068000	ZNF genes & repeats	Brain Germinal Matrix	brain
28	chr7:8064400-8067200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr7:8064400-8067400	ZNF genes & repeats	Primary B cells from cord blood	blood
30	chr7:8064400-8067400	ZNF genes & repeats	Fetal Muscle Leg	muscle
31	chr7:8064400-8068000	ZNF genes & repeats	Fetal Brain Female	brain
32	chr7:8064400-8096200	Weak transcription	NHLF	lung
33	chr7:8064800-8067400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
34	chr7:8065000-8067200	Strong transcription	Fetal Thymus	thymus
35	chr7:8065000-8074400	Weak transcription	Aorta	Aorta
36	chr7:8065000-8076800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr7:8065000-8095000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr7:8065000-8108600	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr7:8065400-8067200	ZNF genes & repeats	Fetal Lung	lung
40	chr7:8065600-8067200	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr7:8065800-8067200	Strong transcription	Placenta Amnion	Placenta Amnion
42	chr7:8066000-8067200	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr7:8066000-8067200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr7:8066000-8067200	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr7:8066000-8067200	ZNF genes & repeats	Fetal Intestine Small	intestine
46	chr7:8066000-8067200	ZNF genes & repeats	Fetal Stomach	stomach
47	chr7:8066000-8067200	Strong transcription	Left Ventricle	heart
48	chr7:8066200-8067200	Strong transcription	Primary B cells from peripheral blood	blood
49	chr7:8066400-8067200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr7:8066400-8067200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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