Variant report

Variant	rs56140509
Chromosome Location	chr7:98678213-98678214
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	chr7:98676065..98678383-chr7:98685350..98688262,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12112617	1.00[EUR][1000 genomes]
rs12112986	1.00[EUR][1000 genomes]
rs12113003	1.00[EUR][1000 genomes]
rs12113535	1.00[EUR][1000 genomes]
rs12113540	1.00[EUR][1000 genomes]
rs35614868	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4729513	1.00[EUR][1000 genomes]
rs56008123	1.00[AMR][1000 genomes]
rs6975658	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73399283	1.00[EUR][1000 genomes]
rs73709536	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73709550	1.00[EUR][1000 genomes]
rs7783504	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7800815	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7804376	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024529	chr7:98194830-98793518	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv539036	chr7:98194830-98793518	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv1034506	chr7:98556216-98678440	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98650200-98681000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr7:98653000-98690800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr7:98654800-98690200	Weak transcription	Fetal Kidney	kidney
4	chr7:98655200-98681000	Weak transcription	Hela-S3	cervix
5	chr7:98656400-98685400	Weak transcription	HSMMtube	muscle
6	chr7:98656600-98683400	Weak transcription	Fetal Intestine Large	intestine
7	chr7:98657800-98681000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr7:98658800-98684200	Weak transcription	Dnd41	blood
9	chr7:98659200-98684000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr7:98668600-98684800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr7:98670800-98680800	Weak transcription	Liver	Liver
12	chr7:98671000-98684800	Weak transcription	K562	blood
13	chr7:98674600-98681400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr7:98674600-98684600	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr7:98676200-98684000	Weak transcription	Fetal Brain Male	brain
16	chr7:98676400-98679000	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr7:98676600-98678400	Enhancers	A549	lung
18	chr7:98676600-98702200	Weak transcription	Brain Germinal Matrix	brain
19	chr7:98677000-98678400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr7:98677000-98678400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr7:98677000-98678400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr7:98677000-98678400	Weak transcription	Fetal Stomach	stomach
23	chr7:98677000-98678400	Weak transcription	Right Atrium	heart
24	chr7:98677000-98678400	Weak transcription	Spleen	Spleen
25	chr7:98677000-98678600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr7:98677000-98678600	Weak transcription	Fetal Muscle Leg	muscle
27	chr7:98677000-98678600	Weak transcription	Right Ventricle	heart
28	chr7:98677000-98680000	Weak transcription	Thymus	Thymus
29	chr7:98677000-98681000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr7:98677000-98681000	Weak transcription	NHLF	lung
31	chr7:98677000-98681400	Weak transcription	Esophagus	oesophagus
32	chr7:98677000-98681400	Weak transcription	Psoas Muscle	Psoas
33	chr7:98677000-98683400	Weak transcription	Primary B cells from cord blood	blood
34	chr7:98677000-98684000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr7:98677000-98684000	Weak transcription	Fetal Brain Female	brain
36	chr7:98677000-98684200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr7:98677000-98686000	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr7:98677000-98687600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr7:98677000-98687600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr7:98677000-98689000	Weak transcription	Gastric	stomach
41	chr7:98677000-98690000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr7:98677000-98693400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr7:98677000-98693400	Weak transcription	Aorta	Aorta
44	chr7:98677000-98693600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr7:98677000-98694800	Weak transcription	Fetal Intestine Small	intestine
46	chr7:98677000-98696200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr7:98677000-98696200	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr7:98677000-98700000	Weak transcription	HSMM	muscle
49	chr7:98677200-98678400	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr7:98677200-98678400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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