Variant report

Variant	rs274609
Chromosome Location	chr1:74970315-74970316
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	chr1:74969628..74970367-chr1:75199475..75200023,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11210467	0.84[EUR][1000 genomes]
rs274602	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs274606	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs274607	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs274608	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs507162	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs596204	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs649058	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9730586	0.82[AMR][1000 genomes];0.92[EUR][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	nsv522147	chr1:74338530-74983835	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1003171	chr1:74407468-75122270	Strong transcription Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv535000	chr1:74407468-75122270	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1007414	chr1:74726454-74976335	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv535002	chr1:74726454-74976335	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1011745	chr1:74730942-75477618	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv535003	chr1:74730942-75477618	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv1010042	chr1:74798856-75001977	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv1002903	chr1:74831209-74993866	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv830248	chr1:74962391-75144458	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:74959800-74977800	Weak transcription	Left Ventricle	heart
2	chr1:74968400-74971600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr1:74968600-74974200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:74969000-74970600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr1:74969400-74970400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr1:74969400-74970600	Enhancers	Fetal Brain Female	brain
7	chr1:74969400-74972600	Enhancers	Fetal Heart	heart
8	chr1:74969600-74970600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr1:74969600-74971000	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr1:74969600-74972200	Enhancers	Pancreatic Islets	Pancreatic Islet
11	chr1:74969600-74972400	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr1:74969800-74970400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr1:74969800-74970800	Enhancers	Brain Hippocampus Middle	brain
14	chr1:74969800-74971000	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr1:74969800-74971000	Enhancers	H1 Cell Line	embryonic stem cell
16	chr1:74969800-74971000	Enhancers	HUES64 Cell Line	embryonic stem cell
17	chr1:74969800-74971200	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr1:74969800-74973200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:74969800-74973400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr1:74970000-74970600	Weak transcription	Brain Cingulate Gyrus	brain
21	chr1:74970000-74970800	Enhancers	Brain Anterior Caudate	brain
22	chr1:74970000-74973200	Enhancers	Fetal Brain Male	brain
23	chr1:74970200-74970400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
24	chr1:74970200-74970800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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