Variant report

Variant	rs12642852
Chromosome Location	chr4:6948950-6948951
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6910492..6915918-chr4:6946437..6950272,7	K562	blood:
2	chr4:6927493..6929739-chr4:6946981..6949624,2	K562	blood:
3	chr4:6948005..6950003-chr4:6950357..6953103,2	K562	blood:

Variant related genes	Relation type
ENSG00000132405	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10937772	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11732898	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13135912	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3892490	0.85[EUR][1000 genomes]
rs4296677	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4428285	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4458452	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4645214	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4689059	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4689060	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4689568	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6816882	0.85[EUR][1000 genomes]
rs7658198	0.85[EUR][1000 genomes]
rs7693321	0.84[EUR][1000 genomes]
rs8180337	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer 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	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6928000-6969600	Weak transcription	Aorta	Aorta
2	chr4:6943800-6955400	Weak transcription	Brain Substantia Nigra	brain
3	chr4:6944400-6949800	Weak transcription	Fetal Lung	lung
4	chr4:6944800-6955400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:6945000-6949000	Genic enhancers	Fetal Intestine Small	intestine
6	chr4:6945000-6949600	Weak transcription	Fetal Kidney	kidney
7	chr4:6945000-6955400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:6945000-6970200	Weak transcription	Hela-S3	cervix
9	chr4:6945200-6955600	Weak transcription	Fetal Brain Female	brain
10	chr4:6945400-6953600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr4:6945400-6955400	Weak transcription	Fetal Stomach	stomach
12	chr4:6945600-6949800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr4:6945600-6952800	Weak transcription	Esophagus	oesophagus
14	chr4:6945600-6952800	Weak transcription	K562	blood
15	chr4:6945600-6953000	Weak transcription	Primary B cells from peripheral blood	blood
16	chr4:6945600-6953600	Weak transcription	GM12878-XiMat	blood
17	chr4:6945600-6955600	Weak transcription	Left Ventricle	heart
18	chr4:6945800-6953600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr4:6945800-6965800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr4:6946000-6949800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr4:6946000-6953000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr4:6946400-6955400	Weak transcription	NHLF	lung
23	chr4:6946600-6949000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr4:6946600-6949600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:6946600-6953000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr4:6946600-6955200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr4:6946600-6955400	Weak transcription	Stomach Smooth Muscle	stomach
28	chr4:6946600-6955800	Weak transcription	Fetal Brain Male	brain
29	chr4:6946600-6969000	Weak transcription	Dnd41	blood
30	chr4:6946800-6949400	Weak transcription	Lung	lung
31	chr4:6946800-6949600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:6946800-6949600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr4:6946800-6949600	Weak transcription	Liver	Liver
34	chr4:6946800-6949600	Weak transcription	Gastric	stomach
35	chr4:6946800-6949600	Weak transcription	Pancreas	Pancrea
36	chr4:6946800-6952600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr4:6946800-6953600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr4:6946800-6953600	Weak transcription	Brain Hippocampus Middle	brain
39	chr4:6946800-6953600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr4:6946800-6954000	Weak transcription	Primary B cells from cord blood	blood
41	chr4:6946800-6955400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr4:6946800-6955400	Weak transcription	Stomach Mucosa	stomach
43	chr4:6946800-6955400	Weak transcription	NHDF-Ad	bronchial
44	chr4:6947000-6949200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr4:6947000-6949200	Weak transcription	Colonic Mucosa	Colon
46	chr4:6947000-6949400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr4:6947000-6949600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr4:6947000-6949600	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr4:6947000-6949600	Weak transcription	Small Intestine	intestine
50	chr4:6947000-6949600	Weak transcription	Thymus	Thymus

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