Variant report

Variant	rs57310698
Chromosome Location	chr19:39830933-39830934
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr19:39830837-39830993	HepG2	liver:	n/a	n/a
2	FOS	chr19:39830881-39831025	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr19:39830690-39831017	HepG2	liver:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:39826587..39828135-chr19:39829547..39831242,2	K562	blood:
2	chr19:39829936..39834375-chr19:39901478..39904741,5	MCF-7	breast:
3	chr19:39830889..39835466-chr19:39836647..39841099,6	MCF-7	breast:
4	chr19:39830669..39836861-chr19:39895802..39900887,6	MCF-7	breast:
5	chr19:39828912..39834348-chr19:39896525..39904623,14	K562	blood:
6	chr19:39419877..39422700-chr19:39830755..39832445,2	MCF-7	breast:

No data

Variant related genes	Relation type
SAMD4B	TF binding region
GMFG	TF binding region
ENSG00000128016	Chromatin interaction
ENSG00000266559	Chromatin interaction
ENSG00000130755	Chromatin interaction
ENSG00000179134	Chromatin interaction
ENSG00000090924	Chromatin interaction
ENSG00000128626	Chromatin interaction
ENSG00000104835	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs28370340	0.90[EUR][1000 genomes]
rs41275744	0.83[ASN][1000 genomes]
rs45601936	0.90[EUR][1000 genomes]
rs7246750	0.90[EUR][1000 genomes]
rs7250420	0.90[EUR][1000 genomes]
rs73546046	0.94[ASN][1000 genomes]
rs73546050	0.94[ASN][1000 genomes]
rs8102194	0.90[EUR][1000 genomes]
rs917319	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432048	chr19:39572060-39850060	Bivalent/Poised TSS Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv833830	chr19:39709538-39837846	Enhancers Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
3	nsv911679	chr19:39735106-39924129	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	198 gene(s)	inside rSNPs	diseases
4	nsv1058514	chr19:39744112-39902580	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
5	nsv911680	chr19:39792460-39924129	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	194 gene(s)	inside rSNPs	diseases
6	nsv911681	chr19:39797716-39856246	Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
7	esv10629	chr19:39811570-39886212	Flanking Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
8	nsv870133	chr19:39822160-39938468	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	233 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39818600-39831600	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr19:39823800-39831200	Weak transcription	A549	lung
3	chr19:39826400-39831400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:39826400-39831400	Weak transcription	Brain Angular Gyrus	brain
5	chr19:39826400-39831400	Weak transcription	Brain Anterior Caudate	brain
6	chr19:39826400-39831400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr19:39826400-39831400	Weak transcription	Colon Smooth Muscle	Colon
8	chr19:39826600-39831400	Weak transcription	Small Intestine	intestine
9	chr19:39826600-39831600	Weak transcription	Esophagus	oesophagus
10	chr19:39826800-39831000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr19:39826800-39831200	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr19:39826800-39831400	Weak transcription	Brain Hippocampus Middle	brain
13	chr19:39826800-39831400	Weak transcription	Fetal Muscle Trunk	muscle
14	chr19:39826800-39831400	Weak transcription	Left Ventricle	heart
15	chr19:39826800-39831400	Weak transcription	Right Ventricle	heart
16	chr19:39826800-39831600	Weak transcription	Right Atrium	heart
17	chr19:39827000-39831200	Weak transcription	Placenta	Placenta
18	chr19:39827000-39831200	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr19:39827000-39831200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr19:39827000-39831400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr19:39827000-39831400	Enhancers	Fetal Thymus	thymus
22	chr19:39827000-39831400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr19:39827000-39831400	Weak transcription	NHLF	lung
24	chr19:39827400-39831200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr19:39827400-39831400	Weak transcription	HUVEC	blood vessel
26	chr19:39827600-39831200	Weak transcription	Duodenum Mucosa	Duodenum
27	chr19:39828400-39831200	Weak transcription	HSMM	muscle
28	chr19:39828400-39831400	Weak transcription	Spleen	Spleen
29	chr19:39828600-39831200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr19:39828600-39831200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr19:39828600-39831200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr19:39828600-39831600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr19:39829200-39831200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr19:39829200-39831200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr19:39829200-39831200	Weak transcription	Adipose Nuclei	Adipose
36	chr19:39829200-39831400	Weak transcription	Aorta	Aorta
37	chr19:39829200-39831400	Weak transcription	GM12878-XiMat	blood
38	chr19:39829200-39831400	Weak transcription	Hela-S3	cervix
39	chr19:39829400-39831200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr19:39829400-39831200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr19:39829800-39831200	Enhancers	Thymus	Thymus
42	chr19:39830000-39832000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr19:39830200-39831400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr19:39830200-39831800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
45	chr19:39830400-39831200	Enhancers	Primary T cells from cord blood	blood
46	chr19:39830400-39831200	Enhancers	Primary hematopoietic stem cells	blood
47	chr19:39830400-39831200	Enhancers	NHDF-Ad	bronchial
48	chr19:39830400-39831400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
49	chr19:39830400-39831400	Enhancers	Primary T helper cells PMA-I stimulated	--
50	chr19:39830400-39831400	Enhancers	Primary T helper cells fromperipheralblood	blood

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