Variant report

Variant	rs1687990
Chromosome Location	chr19:35694773-35694774
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:35694392..35696589-chr19:35707373..35710054,2	K562	blood:
2	chr19:35686366..35688378-chr19:35693649..35696328,2	K562	blood:
3	chr19:35647531..35650498-chr19:35693882..35696047,2	K562	blood:
4	chr19:35694470..35696159-chr19:35738166..35740391,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105699	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1633917	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1633919	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1633920	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1633921	0.80[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.82[MEX][hapmap];0.85[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1687988	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1687989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv2470	chr19:35655281-35702565	Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35691800-35696200	Weak transcription	Gastric	stomach
2	chr19:35691800-35697000	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr19:35692000-35696800	Enhancers	H1 Cell Line	embryonic stem cell
4	chr19:35692200-35695000	Weak transcription	Spleen	Spleen
5	chr19:35692200-35696000	Weak transcription	Stomach Mucosa	stomach
6	chr19:35692400-35695000	Weak transcription	Fetal Thymus	thymus
7	chr19:35693400-35696400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr19:35693400-35697000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr19:35693400-35699400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
10	chr19:35693400-35707000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr19:35693600-35694800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr19:35693600-35694800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr19:35693600-35696200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr19:35693600-35696800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr19:35693600-35697000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
16	chr19:35693600-35697000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr19:35693600-35698800	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr19:35693600-35701800	Weak transcription	Right Atrium	heart
19	chr19:35693800-35696000	Enhancers	K562	blood
20	chr19:35693800-35697200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
21	chr19:35694000-35695000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr19:35694000-35695200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr19:35694000-35697600	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr19:35694000-35704400	Enhancers	Primary T cells fromperipheralblood	blood
25	chr19:35694200-35696600	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr19:35694200-35696800	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr19:35694200-35697200	Enhancers	Primary B cells from peripheral blood	blood
28	chr19:35694200-35697400	Enhancers	Primary T cells from cord blood	blood
29	chr19:35694200-35699200	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr19:35694200-35708200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr19:35694400-35695200	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr19:35694400-35695400	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr19:35694400-35696600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
34	chr19:35694400-35697000	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr19:35694400-35697400	Enhancers	iPS-18 Cell Line	embryonic stem cell
36	chr19:35694600-35697200	Enhancers	Primary B cells from cord blood	blood
37	chr19:35694600-35697200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr19:35694600-35699200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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