Variant report

Variant	rs59534183
Chromosome Location	chr19:36396122-36396123
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr19:36396048-36396675	SK-N-SH	brain:	n/a	chr19:36396442-36396453

No.	Distal block	Cell Line	Cell type
1	chr19:36387478..36389349-chr19:36394132..36396571,2	MCF-7	breast:
2	chr19:36389776..36392991-chr19:36393581..36401271,10	K562	blood:
3	chr19:36205479..36207948-chr19:36393989..36396293,2	K562	blood:
4	chr19:36394774..36396289-chr19:36397745..36399812,2	MCF-7	breast:
5	chr19:36390133..36392611-chr19:36392789..36396319,5	MCF-7	breast:

Variant related genes	Relation type
NFKBID	TF binding region
ENSG00000167604	Chromatin interaction
ENSG00000011600	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10221486	0.81[EUR][1000 genomes]
rs1057265	0.85[EUR][1000 genomes]
rs11878444	0.85[EUR][1000 genomes]
rs11879537	0.81[EUR][1000 genomes]
rs11881157	0.81[EUR][1000 genomes]
rs11882386	0.85[EUR][1000 genomes]
rs13382036	0.81[EUR][1000 genomes]
rs2242590	0.85[EUR][1000 genomes]
rs230260	0.84[EUR][1000 genomes]
rs34933126	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56744930	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56922307	0.85[EUR][1000 genomes]
rs57068163	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57094555	0.85[EUR][1000 genomes]
rs57412339	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57516855	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57962062	0.81[EUR][1000 genomes]
rs58161969	0.85[EUR][1000 genomes]
rs58291714	0.84[EUR][1000 genomes]
rs58456578	0.81[EUR][1000 genomes]
rs58504183	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58551711	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58622306	1.00[ASN][1000 genomes]
rs58976020	0.81[EUR][1000 genomes]
rs59150589	0.81[EUR][1000 genomes]
rs59399698	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59416903	0.81[EUR][1000 genomes]
rs59478831	0.95[EUR][1000 genomes]
rs60073802	0.85[EUR][1000 genomes]
rs60268250	0.84[EUR][1000 genomes]
rs60576074	0.84[EUR][1000 genomes]
rs60869994	0.84[EUR][1000 genomes]
rs60935148	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61660311	0.85[EUR][1000 genomes]
rs61672461	0.95[EUR][1000 genomes]
rs7246259	0.81[EUR][1000 genomes]
rs7246541	0.81[EUR][1000 genomes]
rs7247000	0.81[EUR][1000 genomes]
rs7252526	0.81[EUR][1000 genomes]
rs7253086	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7254335	0.81[EUR][1000 genomes]
rs7256280	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7256433	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7257789	0.81[EUR][1000 genomes]
rs7257911	0.81[EUR][1000 genomes]
rs7258914	0.81[EUR][1000 genomes]
rs7260613	0.95[EUR][1000 genomes]
rs73590883	0.95[EUR][1000 genomes]
rs73590895	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs73599539	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73599540	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73599546	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73599554	0.81[EUR][1000 genomes]
rs73599561	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73599565	0.85[EUR][1000 genomes]
rs73599577	0.85[EUR][1000 genomes]
rs73599586	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73599600	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73599602	0.85[EUR][1000 genomes]
rs73928364	0.81[EUR][1000 genomes]
rs8110868	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs909135	0.90[EUR][1000 genomes]
rs909136	0.90[EUR][1000 genomes]
rs9749492	0.84[EUR][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	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	nsv911638	chr19:36265508-36537959	Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	esv3526489	chr19:36306483-36741945	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
4	esv3526490	chr19:36306483-36741945	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
5	esv1831737	chr19:36324324-36690874	Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
6	nsv833812	chr19:36331913-36507594	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
7	nsv833813	chr19:36341181-36499431	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36391600-36397400	Weak transcription	Stomach Mucosa	stomach
2	chr19:36391800-36396400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
3	chr19:36392000-36398000	Weak transcription	Brain Angular Gyrus	brain
4	chr19:36392200-36397400	Weak transcription	Colon Smooth Muscle	Colon
5	chr19:36392200-36398600	Weak transcription	Right Atrium	heart
6	chr19:36393600-36397400	Weak transcription	Hela-S3	cervix
7	chr19:36394000-36398000	Weak transcription	Brain Hippocampus Middle	brain
8	chr19:36394400-36398400	Weak transcription	Brain Substantia Nigra	brain
9	chr19:36394600-36396200	Enhancers	Primary B cells from peripheral blood	blood
10	chr19:36394600-36397200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr19:36394600-36397800	Weak transcription	Liver	Liver
12	chr19:36394600-36398000	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr19:36394800-36396400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr19:36394800-36396400	Enhancers	K562	blood
15	chr19:36394800-36397000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr19:36394800-36397400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr19:36394800-36397400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr19:36394800-36397800	Weak transcription	Duodenum Mucosa	Duodenum
19	chr19:36394800-36397800	Weak transcription	Right Ventricle	heart
20	chr19:36394800-36398000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr19:36394800-36398200	Weak transcription	Colonic Mucosa	Colon
22	chr19:36394800-36398400	Weak transcription	Pancreas	Pancrea
23	chr19:36394800-36404000	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr19:36395000-36396200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr19:36395000-36396400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr19:36395000-36396400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr19:36395000-36396400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr19:36395000-36396400	Enhancers	Fetal Thymus	thymus
29	chr19:36395000-36397200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr19:36395000-36398000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr19:36395000-36398000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr19:36395000-36398000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr19:36395000-36398000	Weak transcription	HSMM	muscle
34	chr19:36395000-36398200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr19:36395000-36398200	Weak transcription	Gastric	stomach
36	chr19:36395000-36398400	Weak transcription	Lung	lung
37	chr19:36395000-36398400	Weak transcription	Spleen	Spleen
38	chr19:36395000-36398600	Weak transcription	Brain Cingulate Gyrus	brain
39	chr19:36395000-36400000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr19:36395000-36400200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr19:36395000-36402800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr19:36395200-36396200	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr19:36395200-36396400	Enhancers	Primary T cells fromperipheralblood	blood
44	chr19:36395200-36396400	Enhancers	Primary T helper naive cells from peripheral blood	blood
45	chr19:36395200-36396400	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr19:36395200-36396400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
47	chr19:36395200-36396400	Enhancers	GM12878-XiMat	blood
48	chr19:36395200-36396600	Flanking Active TSS	Primary B cells from cord blood	blood
49	chr19:36395200-36397800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr19:36395200-36398000	Weak transcription	H1 Cell Line	embryonic stem cell

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