Variant report

Variant	rs28477961
Chromosome Location	chr19:19129475-19129476
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:19123260..19126135-chr19:19127859..19130447,2	K562	blood:
2	chr19:19123249..19131135-chr19:19141063..19146907,7	K562	blood:
3	chr19:19125900..19131875-chr19:19132072..19136394,7	K562	blood:
4	chr19:19123050..19124723-chr19:19127391..19129612,2	MCF-7	breast:
5	chr19:19119549..19121094-chr19:19127097..19130052,2	K562	blood:
6	chr19:19117830..19119448-chr19:19128225..19130142,2	K562	blood:

Variant related genes	Relation type
ENSG00000105676	Chromatin interaction
ENSG00000064607	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10403808	0.86[AFR][1000 genomes]
rs10404020	0.83[AFR][1000 genomes]
rs10404077	0.86[AFR][1000 genomes]
rs10404879	1.00[AFR][1000 genomes]
rs10405178	0.86[AFR][1000 genomes]
rs10405609	0.83[AFR][1000 genomes]
rs10406282	1.00[AFR][1000 genomes]
rs10406341	1.00[AFR][1000 genomes]
rs10406496	0.93[AFR][1000 genomes]
rs10407260	1.00[AFR][1000 genomes]
rs10407753	0.93[AFR][1000 genomes]
rs10407980	0.86[AFR][1000 genomes]
rs10408567	0.93[AFR][1000 genomes]
rs10409265	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10409297	1.00[AMR][1000 genomes]
rs10409395	1.00[AFR][1000 genomes]
rs10411786	0.86[AFR][1000 genomes]
rs10412101	1.00[AFR][1000 genomes]
rs10413216	0.86[AFR][1000 genomes]
rs10414535	1.00[AFR][1000 genomes]
rs10414859	1.00[AMR][1000 genomes]
rs10415998	0.88[AFR][1000 genomes]
rs10416041	1.00[AFR][1000 genomes]
rs10416054	1.00[AFR][1000 genomes]
rs10416240	1.00[AFR][1000 genomes]
rs10416250	1.00[AFR][1000 genomes]
rs10416730	1.00[AFR][1000 genomes]
rs10417310	1.00[AFR][1000 genomes]
rs10417682	1.00[AFR][1000 genomes]
rs10417995	0.95[AFR][1000 genomes]
rs10418688	1.00[AFR][1000 genomes]
rs10419114	1.00[AFR][1000 genomes]
rs10419307	1.00[AFR][1000 genomes]
rs10420479	0.95[AFR][1000 genomes]
rs10420559	0.93[AFR][1000 genomes]
rs10422058	0.91[AFR][1000 genomes]
rs10422079	0.88[AFR][1000 genomes]
rs10422238	0.84[AFR][1000 genomes]
rs10422813	0.88[AFR][1000 genomes]
rs10423129	1.00[AFR][1000 genomes]
rs10423504	1.00[AMR][1000 genomes]
rs10426131	1.00[AFR][1000 genomes]
rs13344835	0.88[AFR][1000 genomes]
rs13345246	1.00[AFR][1000 genomes]
rs28369262	0.93[AFR][1000 genomes]
rs28374656	0.86[AFR][1000 genomes]
rs28376498	0.95[AFR][1000 genomes]
rs28380085	0.88[AFR][1000 genomes]
rs28421315	1.00[AFR][1000 genomes]
rs28445835	0.95[AFR][1000 genomes]
rs28475392	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28477157	1.00[AFR][1000 genomes]
rs28507927	1.00[AFR][1000 genomes]
rs28533991	0.86[AFR][1000 genomes]
rs28582808	0.88[AFR][1000 genomes]
rs28619464	0.95[AFR][1000 genomes]
rs28628081	1.00[AFR][1000 genomes]
rs28699197	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28720008	1.00[AFR][1000 genomes]
rs35646935	1.00[AFR][1000 genomes]
rs6511012	0.88[AFR][1000 genomes]
rs7248183	1.00[AMR][1000 genomes]
rs7252085	0.88[AFR][1000 genomes]
rs7252172	1.00[AMR][1000 genomes]
rs8106189	1.00[AFR][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	nsv833778	chr19:19012669-19201487	Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19101000-19133000	Strong transcription	Fetal Thymus	thymus
2	chr19:19101200-19130400	Strong transcription	Duodenum Mucosa	Duodenum
3	chr19:19101200-19140200	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr19:19101400-19130400	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr19:19101400-19142000	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr19:19101600-19130400	Strong transcription	Primary T cells from cord blood	blood
7	chr19:19101600-19130400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr19:19102000-19130200	Strong transcription	Sigmoid Colon	Sigmoid Colon
9	chr19:19102000-19132000	Strong transcription	Dnd41	blood
10	chr19:19103200-19130200	Strong transcription	Duodenum Smooth Muscle	Duodenum
11	chr19:19106800-19143000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr19:19107200-19130200	Strong transcription	Brain Germinal Matrix	brain
13	chr19:19107200-19142600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr19:19107600-19130200	Strong transcription	Brain Hippocampus Middle	brain
15	chr19:19107600-19142600	Strong transcription	Fetal Stomach	stomach
16	chr19:19107800-19130200	Strong transcription	Placenta	Placenta
17	chr19:19107800-19130400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr19:19107800-19130400	Strong transcription	Fetal Brain Female	brain
19	chr19:19108000-19142000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr19:19108000-19142800	Strong transcription	HUES6 Cell Line	embryonic stem cell
21	chr19:19108200-19130400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr19:19108200-19142600	Weak transcription	Right Atrium	heart
23	chr19:19108600-19130600	Strong transcription	HUES48 Cell Line	embryonic stem cell
24	chr19:19108600-19142200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr19:19108600-19142800	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr19:19108800-19130400	Strong transcription	Primary B cells from peripheral blood	blood
27	chr19:19109000-19130400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr19:19109000-19141800	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr19:19109400-19130200	Strong transcription	H1 Cell Line	embryonic stem cell
30	chr19:19109400-19130200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr19:19109400-19142400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr19:19109800-19130200	Strong transcription	GM12878-XiMat	blood
33	chr19:19110200-19130400	Strong transcription	Stomach Smooth Muscle	stomach
34	chr19:19110600-19130000	Strong transcription	Brain Cingulate Gyrus	brain
35	chr19:19110600-19142400	Strong transcription	Fetal Muscle Trunk	muscle
36	chr19:19111000-19130200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr19:19111000-19133600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr19:19111200-19130200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr19:19111200-19130200	Strong transcription	Spleen	Spleen
40	chr19:19111200-19130400	Strong transcription	Primary T helper cells PMA-I stimulated	--
41	chr19:19111200-19130400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr19:19111200-19130400	Strong transcription	Liver	Liver
43	chr19:19111200-19131400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr19:19111400-19130200	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr19:19111400-19130400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr19:19111600-19130400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr19:19112000-19130200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr19:19112200-19130400	Strong transcription	HMEC	breast
49	chr19:19112800-19130200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr19:19112800-19130200	Strong transcription	Osteobl	bone

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