Variant report

Variant	rs1557817
Chromosome Location	chr4:7772551-7772552
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:7771826..7772718-chr4:7988877..7990121,4	MCF-7	breast:
2	chr4:7771806..7772761-chr4:7803548..7804554,10	MCF-7	breast:
3	chr4:7767721..7770258-chr4:7770613..7772876,3	K562	blood:
4	chr4:7769826..7772813-chr4:7778014..7779534,2	K562	blood:
5	chr4:7768892..7770809-chr4:7771728..7774160,2	K562	blood:
6	chr4:7763518..7765099-chr4:7771981..7774242,3	K562	blood:
7	chr4:7770767..7773381-chr4:7774826..7777247,2	K562	blood:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10015031	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10025154	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10029941	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10032821	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12644614	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12645231	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13109291	0.80[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1344223	0.82[CHB][hapmap]
rs16841211	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16841229	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2018399	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2107182	0.80[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.93[ASN][1000 genomes]
rs2385914	0.82[CHB][hapmap]
rs28460880	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28729246	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4075363	0.82[CHB][hapmap]
rs4234829	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[ASN][1000 genomes]
rs4689161	0.91[ASN][1000 genomes]
rs55689818	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs60422709	0.88[EUR][1000 genomes]
rs6446619	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6827395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6828807	0.80[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6829473	0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.80[AMR][1000 genomes]
rs6838291	1.00[CHB][hapmap]
rs6852990	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs756255	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7698368	0.82[CHB][hapmap]
rs9790401	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9917925	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878570	chr4:7534603-7836835	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv491712	chr4:7582506-8155069	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1007319	chr4:7705550-7832097	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv537018	chr4:7705550-7832097	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7757600-7779600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr4:7758000-7780800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr4:7758200-7783200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr4:7758400-7795400	Weak transcription	Hela-S3	cervix
5	chr4:7758600-7780600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr4:7759400-7790400	Weak transcription	Psoas Muscle	Psoas
7	chr4:7759800-7773800	Weak transcription	Fetal Kidney	kidney
8	chr4:7760000-7783000	Strong transcription	HSMMtube	muscle
9	chr4:7760000-7783200	Strong transcription	HSMM	muscle
10	chr4:7760200-7774200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr4:7760200-7779400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:7760400-7780400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr4:7760600-7780000	Weak transcription	Right Atrium	heart
14	chr4:7761000-7780400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:7761200-7781000	Strong transcription	Cortex derived primary cultured neurospheres	brain
16	chr4:7761400-7773400	Strong transcription	Rectal Mucosa Donor 29	rectum
17	chr4:7761400-7784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:7761800-7774400	Strong transcription	HUES6 Cell Line	embryonic stem cell
19	chr4:7762000-7773800	Strong transcription	NHLF	lung
20	chr4:7762000-7788000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr4:7762000-7805800	Weak transcription	Stomach Mucosa	stomach
22	chr4:7762200-7772800	Strong transcription	Rectal Mucosa Donor 31	rectum
23	chr4:7763000-7775400	Weak transcription	Right Ventricle	heart
24	chr4:7764000-7773400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr4:7764000-7774400	Strong transcription	Adipose Nuclei	Adipose
26	chr4:7764400-7776400	Strong transcription	Gastric	stomach
27	chr4:7764800-7774400	Strong transcription	Placenta	Placenta
28	chr4:7765000-7772600	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr4:7765000-7776600	Strong transcription	Spleen	Spleen
30	chr4:7765000-7780000	Strong transcription	Lung	lung
31	chr4:7766000-7772800	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr4:7766000-7780600	Strong transcription	Osteobl	bone
33	chr4:7766200-7773800	Weak transcription	HMEC	breast
34	chr4:7766600-7773800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr4:7766800-7781200	Strong transcription	HUVEC	blood vessel
36	chr4:7767000-7772600	Strong transcription	A549	lung
37	chr4:7767200-7772800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr4:7767200-7776600	Strong transcription	Placenta Amnion	Placenta Amnion
39	chr4:7767200-7780800	Strong transcription	NH-A	brain
40	chr4:7767600-7781000	Strong transcription	Muscle Satellite Cultured Cells	--
41	chr4:7767800-7774600	Genic enhancers	Stomach Smooth Muscle	stomach
42	chr4:7768000-7774400	Strong transcription	NHDF-Ad	bronchial
43	chr4:7768200-7773000	Strong transcription	Colonic Mucosa	Colon
44	chr4:7768200-7776200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr4:7768200-7777200	Weak transcription	Brain Substantia Nigra	brain
46	chr4:7768400-7772600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr4:7768400-7772600	Genic enhancers	Fetal Muscle Trunk	muscle
48	chr4:7768400-7775400	Genic enhancers	Fetal Muscle Leg	muscle
49	chr4:7768800-7773000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr4:7769000-7780200	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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