Variant report

Variant	rs1687994
Chromosome Location	chr19:35590180-35590181
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	chr19:35589524..35591254-chr19:35593014..35595078,2	MCF-7	breast:
2	chr19:35588896..35592983-chr19:35603946..35607822,9	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC020907.3-1	chr19:35590109-35590291	ENSG00000227392.1

Variant related genes	Relation type
ENSG00000089356	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs1673011	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs17775666	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs897760	1.00[YRI][hapmap];0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv911612	chr19:35501051-35602498	Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
3	nsv911614	chr19:35570307-35648365	Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	41 gene(s)	inside rSNPs	diseases
4	nsv911615	chr19:35577870-35648365	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
5	nsv911616	chr19:35577870-35669071	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
6	nsv960759	chr19:35587586-35590800	Enhancers Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv911617	chr19:35587791-35642297	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35582200-35591600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr19:35582200-35605600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr19:35582400-35591600	Weak transcription	Brain Anterior Caudate	brain
4	chr19:35582600-35601600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr19:35587200-35596200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr19:35587600-35590200	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr19:35587600-35596400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr19:35589000-35590200	Enhancers	HMEC	breast
9	chr19:35589000-35591000	Enhancers	Pancreas	Pancrea
10	chr19:35589200-35590800	Enhancers	Brain Cingulate Gyrus	brain
11	chr19:35589400-35590200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr19:35589400-35590200	Enhancers	Brain Angular Gyrus	brain
13	chr19:35589400-35590600	Enhancers	Liver	Liver
14	chr19:35589400-35590800	Enhancers	Brain Hippocampus Middle	brain
15	chr19:35589400-35591000	Enhancers	Brain Substantia Nigra	brain
16	chr19:35589600-35590200	Enhancers	Gastric	stomach
17	chr19:35589600-35590200	Enhancers	Stomach Mucosa	stomach
18	chr19:35589600-35590600	Enhancers	Esophagus	oesophagus
19	chr19:35589600-35591200	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr19:35589600-35592000	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr19:35589800-35590400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr19:35589800-35590600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr19:35589800-35591800	Enhancers	HepG2	liver
24	chr19:35590000-35590200	Enhancers	NHEK	skin
25	chr19:35590000-35590600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr19:35590000-35605400	Weak transcription	Right Atrium	heart

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