Variant report

Variant	rs289687
Chromosome Location	chr1:76605921-76605922
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:76456932..76457512-chr1:76605708..76606546,2	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11162082	0.84[ASN][1000 genomes]
rs11586933	0.84[ASN][1000 genomes]
rs12407026	0.84[ASN][1000 genomes]
rs12407031	0.84[ASN][1000 genomes]
rs12407845	0.84[ASN][1000 genomes]
rs12408886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12408918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs158620	1.00[JPT][hapmap]
rs17098119	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs190861	1.00[JPT][hapmap]
rs2631779	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2783661	0.89[ASN][1000 genomes]
rs289677	1.00[JPT][hapmap]
rs289678	1.00[JPT][hapmap]
rs289693	1.00[JPT][hapmap]
rs409245	1.00[JPT][hapmap]
rs491409	1.00[JPT][hapmap]
rs552890	1.00[JPT][hapmap]
rs57217665	0.89[ASN][1000 genomes]
rs588073	1.00[JPT][hapmap]
rs6657466	0.89[ASN][1000 genomes]
rs6657828	0.89[ASN][1000 genomes]
rs6664446	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs6673424	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6691344	0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1488	chr1:76587622-76632635	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76575400-76606000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr1:76576600-76620000	Weak transcription	Primary B cells from cord blood	blood
3	chr1:76588200-76615600	Weak transcription	Left Ventricle	heart
4	chr1:76591200-76607800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:76592600-76610800	Weak transcription	Fetal Kidney	kidney
6	chr1:76593000-76608200	Weak transcription	Fetal Lung	lung
7	chr1:76594200-76607400	Weak transcription	Fetal Brain Female	brain
8	chr1:76594600-76615400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr1:76598600-76609800	Weak transcription	Fetal Stomach	stomach
10	chr1:76599800-76620200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:76601800-76606000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr1:76601800-76608200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr1:76602000-76607600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr1:76603600-76608000	Weak transcription	Right Atrium	heart
15	chr1:76604400-76606000	Weak transcription	Stomach Mucosa	stomach
16	chr1:76604600-76606000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr1:76604600-76608200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr1:76604800-76609200	Enhancers	Brain Hippocampus Middle	brain
19	chr1:76605000-76606200	Enhancers	Brain Anterior Caudate	brain
20	chr1:76605000-76608800	Enhancers	Brain Substantia Nigra	brain
21	chr1:76605200-76606000	Enhancers	Brain Cingulate Gyrus	brain
22	chr1:76605200-76606000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr1:76605400-76607800	Enhancers	Adipose Nuclei	Adipose
24	chr1:76605600-76606200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr1:76605600-76606200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr1:76605600-76606200	Enhancers	Brain Angular Gyrus	brain
27	chr1:76605600-76606200	Enhancers	Fetal Brain Male	brain
28	chr1:76605600-76606200	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr1:76605600-76606200	Enhancers	Spleen	Spleen
30	chr1:76605600-76606400	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr1:76605600-76606400	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr1:76605600-76606600	Enhancers	ES-I3 Cell Line	embryonic stem cell
33	chr1:76605600-76606800	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr1:76605600-76607200	Enhancers	Small Intestine	intestine
35	chr1:76605600-76608200	Enhancers	iPS-18 Cell Line	embryonic stem cell
36	chr1:76605800-76606200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr1:76605800-76606200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
38	chr1:76605800-76606400	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr1:76605800-76606800	Enhancers	Fetal Intestine Small	intestine
40	chr1:76605800-76607000	Enhancers	Rectal Mucosa Donor 29	rectum
41	chr1:76605800-76607200	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr1:76605800-76608200	Enhancers	H1 Cell Line	embryonic stem cell
43	chr1:76605800-76608200	Enhancers	H9 Cell Line	embryonic stem cell
44	chr1:76605800-76608200	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr1:76605800-76608200	Enhancers	HUES64 Cell Line	embryonic stem cell

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