Variant report

Variant	rs7556404
Chromosome Location	chr1:46983047-46983048
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:46981951..46984222-chr1:46986722..46989512,3	MCF-7	breast:
2	chr1:46978731..46981085-chr1:46981137..46983096,2	K562	blood:
3	chr1:46974244..46975223-chr1:46982794..46983742,2	K562	blood:
4	chr1:46977403..46980726-chr1:46981041..46983666,4	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11211298	0.93[ASN][1000 genomes]
rs13373780	0.97[ASN][1000 genomes]
rs17102252	0.93[ASN][1000 genomes]
rs59291308	0.97[ASN][1000 genomes]
rs60309634	0.90[ASN][1000 genomes]
rs60791879	0.97[ASN][1000 genomes]
rs61011128	0.88[ASN][1000 genomes]
rs61629467	0.97[ASN][1000 genomes]
rs61691256	0.97[ASN][1000 genomes]
rs6660663	0.90[ASN][1000 genomes]
rs72894674	0.88[ASN][1000 genomes]
rs7515750	0.93[ASN][1000 genomes]
rs7518867	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7525300	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761743	chr1:46339858-47026743	Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv1001455	chr1:46828004-47326539	Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv534950	chr1:46828004-47326539	Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS 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	32 gene(s)	inside rSNPs	diseases
4	nsv1000562	chr1:46832451-47027044	Enhancers Bivalent Enhancer Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv1015045	chr1:46910546-47067492	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	nsv534952	chr1:46910546-47067492	Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv1009193	chr1:46939999-47085667	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
8	nsv998422	chr1:46969626-47023671	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv534953	chr1:46969626-47023671	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
10	nsv1010578	chr1:46977818-47010579	Bivalent/Poised TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:46972800-46986000	Weak transcription	Right Atrium	heart
2	chr1:46981200-46984200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:46981600-46984200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr1:46981800-46984000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr1:46981800-46984000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:46981800-46984000	Enhancers	Esophagus	oesophagus
7	chr1:46981800-46984400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr1:46981800-46986200	Enhancers	A549	lung
9	chr1:46981800-46986800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:46982000-46983200	Enhancers	Breast Myoepithelial Primary Cells	Breast
11	chr1:46982200-46983200	Enhancers	Placenta Amnion	Placenta Amnion
12	chr1:46982200-46983400	Enhancers	HMEC	breast
13	chr1:46982200-46984200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:46982200-46984200	Enhancers	Fetal Intestine Small	intestine
15	chr1:46982200-46984200	Enhancers	Stomach Mucosa	stomach
16	chr1:46982200-46984200	Flanking Active TSS	Hela-S3	cervix
17	chr1:46982400-46983200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr1:46982400-46983200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
19	chr1:46982400-46983200	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
20	chr1:46982400-46983400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
21	chr1:46982400-46983400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr1:46982400-46983400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
23	chr1:46982600-46983200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr1:46982600-46983200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr1:46982600-46983200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr1:46982600-46983200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr1:46982600-46983200	Bivalent Enhancer	Adipose Nuclei	Adipose
28	chr1:46982600-46983200	Flanking Active TSS	Pancreas	Pancrea
29	chr1:46982600-46983400	Bivalent Enhancer	Fetal Kidney	kidney
30	chr1:46982600-46983400	Flanking Active TSS	K562	blood
31	chr1:46982600-46986000	Weak transcription	Gastric	stomach
32	chr1:46982800-46983200	Flanking Active TSS	NHEK	skin
33	chr1:46982800-46983600	Enhancers	H1 Cell Line	embryonic stem cell
34	chr1:46982800-46983600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr1:46982800-46983800	Weak transcription	Spleen	Spleen
36	chr1:46982800-46984200	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
37	chr1:46983000-46983200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
38	chr1:46983000-46983200	Flanking Active TSS	H9 Cell Line	embryonic stem cell
39	chr1:46983000-46983200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
40	chr1:46983000-46983200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
41	chr1:46983000-46983200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr1:46983000-46983200	Enhancers	HSMMtube	muscle
43	chr1:46983000-46983400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
44	chr1:46983000-46983400	Flanking Active TSS	Duodenum Mucosa	Duodenum
45	chr1:46983000-46984200	Enhancers	HepG2	liver
46	chr1:46983000-46984400	Bivalent Enhancer	Fetal Intestine Large	intestine

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