Variant report

Variant	rs1678826
Chromosome Location	chr19:21501734-21501735
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:21501353..21503397-chr19:21510480..21512126,2	MCF-7	breast:

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10426240	1.00[AMR][1000 genomes]
rs1500399	1.00[AMR][1000 genomes]
rs1612863	1.00[AMR][1000 genomes]
rs1613729	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1617506	1.00[AMR][1000 genomes]
rs1618904	1.00[AMR][1000 genomes]
rs1619077	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1620666	1.00[AMR][1000 genomes]
rs1620856	1.00[AMR][1000 genomes]
rs1630930	1.00[AMR][1000 genomes]
rs1645802	1.00[AMR][1000 genomes]
rs1645803	1.00[AMR][1000 genomes]
rs1645805	1.00[AMR][1000 genomes]
rs1678817	1.00[AMR][1000 genomes]
rs1678818	1.00[AMR][1000 genomes]
rs1678819	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678820	1.00[AMR][1000 genomes]
rs1678821	1.00[AMR][1000 genomes]
rs1678823	1.00[AMR][1000 genomes]
rs1678824	1.00[AMR][1000 genomes]
rs1678827	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678828	1.00[AMR][1000 genomes]
rs1678829	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678830	1.00[AMR][1000 genomes]
rs1762551	1.00[AMR][1000 genomes]
rs1762552	1.00[AMR][1000 genomes]
rs1762553	1.00[AMR][1000 genomes]
rs1762557	1.00[AMR][1000 genomes]
rs1762558	1.00[AMR][1000 genomes]
rs1762567	1.00[AMR][1000 genomes]
rs1762568	1.00[AMR][1000 genomes]
rs1762570	1.00[AMR][1000 genomes]
rs1762571	1.00[AMR][1000 genomes]
rs1762572	1.00[AMR][1000 genomes]
rs1762573	1.00[AMR][1000 genomes]
rs1762574	1.00[AMR][1000 genomes]
rs1762575	1.00[AMR][1000 genomes]
rs1762577	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1762581	1.00[AMR][1000 genomes]
rs1762582	1.00[AMR][1000 genomes]
rs1762584	1.00[AMR][1000 genomes]
rs1762586	1.00[AMR][1000 genomes]
rs1762588	1.00[AMR][1000 genomes]
rs1762589	1.00[AMR][1000 genomes]
rs1762593	1.00[AMR][1000 genomes]
rs1781843	1.00[AMR][1000 genomes]
rs1781851	1.00[AMR][1000 genomes]
rs1781852	1.00[AMR][1000 genomes]
rs1781855	1.00[AMR][1000 genomes]
rs1781858	1.00[AMR][1000 genomes]
rs1781864	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781866	1.00[AMR][1000 genomes]
rs1781868	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781869	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781871	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781876	1.00[AMR][1000 genomes]
rs1781877	1.00[AMR][1000 genomes]
rs1781878	1.00[AMR][1000 genomes]
rs1781881	1.00[AMR][1000 genomes]
rs1781885	1.00[AMR][1000 genomes]
rs1781889	1.00[AMR][1000 genomes]
rs1781891	1.00[AMR][1000 genomes]
rs1781892	1.00[AMR][1000 genomes]
rs1781894	1.00[AMR][1000 genomes]
rs2013529	1.00[AMR][1000 genomes]
rs2105448	1.00[AMR][1000 genomes]
rs2173725	1.00[AMR][1000 genomes]
rs2537688	1.00[AMR][1000 genomes]
rs2537694	1.00[AMR][1000 genomes]
rs2562418	1.00[AMR][1000 genomes]
rs2562423	1.00[AMR][1000 genomes]
rs2562426	1.00[AMR][1000 genomes]
rs2650761	1.00[AMR][1000 genomes]
rs2650762	1.00[AMR][1000 genomes]
rs2650765	1.00[AMR][1000 genomes]
rs2650795	1.00[AMR][1000 genomes]
rs2650813	1.00[AMR][1000 genomes]
rs2801870	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28581819	1.00[AMR][1000 genomes]
rs34447812	1.00[AMR][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	esv3518033	chr19:21278465-21747567	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3518034	chr19:21278465-21747567	ZNF genes & repeats Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3414204	chr19:21301761-21839451	ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv911416	chr19:21388995-21548211	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv911417	chr19:21388995-21564001	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	esv3325271	chr19:21445407-21792817	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
7	nsv911420	chr19:21454672-21613397	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	esv2751783	chr19:21465822-21726337	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
9	esv3363678	chr19:21483148-21756908	Strong transcription Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
10	nsv963023	chr19:21491992-21570395	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21473800-21510400	Weak transcription	Fetal Heart	heart
2	chr19:21474800-21509800	Weak transcription	Fetal Brain Male	brain
3	chr19:21475200-21511200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr19:21481600-21505600	Weak transcription	K562	blood
5	chr19:21484400-21511000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr19:21485400-21508600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr19:21485400-21511200	Weak transcription	Gastric	stomach
8	chr19:21485600-21504200	Weak transcription	Pancreas	Pancrea
9	chr19:21487600-21508600	Weak transcription	Fetal Kidney	kidney
10	chr19:21487600-21511200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr19:21488000-21505600	Weak transcription	Right Ventricle	heart
12	chr19:21488200-21511200	Weak transcription	Aorta	Aorta
13	chr19:21489000-21510800	Weak transcription	NH-A	brain
14	chr19:21489600-21506000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr19:21489600-21509000	Weak transcription	Placenta	Placenta
16	chr19:21489800-21504000	Weak transcription	Osteobl	bone
17	chr19:21490200-21508800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr19:21490200-21509200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr19:21492400-21503200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr19:21492400-21506200	Weak transcription	Fetal Lung	lung
21	chr19:21492400-21508600	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr19:21492400-21508800	Weak transcription	Fetal Intestine Large	intestine
23	chr19:21492400-21509000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr19:21492600-21502800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr19:21492600-21509000	Weak transcription	Fetal Muscle Leg	muscle
26	chr19:21492800-21506600	Weak transcription	Fetal Thymus	thymus
27	chr19:21493000-21502600	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr19:21493000-21503400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr19:21493000-21509200	Weak transcription	Fetal Intestine Small	intestine
30	chr19:21493200-21502200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr19:21493600-21505400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr19:21494200-21504600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr19:21494800-21503200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr19:21495400-21508400	Weak transcription	Fetal Brain Female	brain
35	chr19:21496000-21502400	Weak transcription	Thymus	Thymus
36	chr19:21496200-21504600	Weak transcription	HSMMtube	muscle
37	chr19:21496400-21505600	Weak transcription	HepG2	liver
38	chr19:21496800-21509800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr19:21497400-21508600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
40	chr19:21497600-21511000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr19:21498000-21506800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr19:21498200-21504000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr19:21498400-21503200	Weak transcription	Brain Germinal Matrix	brain
44	chr19:21498400-21504000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr19:21498400-21510600	Weak transcription	HUVEC	blood vessel
46	chr19:21498400-21511200	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr19:21498800-21510400	Weak transcription	Rectal Smooth Muscle	rectum
48	chr19:21499200-21506000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr19:21499800-21505200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr19:21500000-21502400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain

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