Variant report

Variant	rs61824006
Chromosome Location	chr1:223969963-223969964
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:223962452..223964542-chr1:223969395..223972147,3	K562	blood:
2	chr1:223888774..223890638-chr1:223967678..223970668,2	K562	blood:
3	chr1:223924368..223926769-chr1:223968941..223970904,2	K562	blood:

Variant related genes	Relation type
ENSG00000162909	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10799327	0.81[EUR][1000 genomes]
rs10915882	0.81[EUR][1000 genomes]
rs10915892	0.80[EUR][1000 genomes]
rs1124943	0.85[EUR][1000 genomes]
rs11806886	0.84[AFR][1000 genomes]
rs12038299	0.86[EUR][1000 genomes]
rs12040633	0.89[EUR][1000 genomes]
rs12042503	0.89[EUR][1000 genomes]
rs12045776	0.81[EUR][1000 genomes]
rs12730520	0.81[EUR][1000 genomes]
rs12731254	0.80[EUR][1000 genomes]
rs12745879	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17559050	0.81[EUR][1000 genomes]
rs17599	0.81[EUR][1000 genomes]
rs2014441	0.81[EUR][1000 genomes]
rs35634773	0.81[EUR][1000 genomes]
rs3856161	0.80[EUR][1000 genomes]
rs4653775	0.84[AFR][1000 genomes]
rs61823593	0.81[EUR][1000 genomes]
rs61823594	0.81[EUR][1000 genomes]
rs61823595	0.81[EUR][1000 genomes]
rs61824002	0.85[EUR][1000 genomes]
rs6678103	0.89[EUR][1000 genomes]
rs745697	0.81[EUR][1000 genomes]
rs7533614	0.80[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	nsv832681	chr1:223698048-224002691	Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	esv3361888	chr1:223725597-224114846	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1007380	chr1:223834380-224042190	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv535310	chr1:223834380-224042190	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	esv34082	chr1:223851018-224144509	Enhancers Genic enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv1008800	chr1:223904653-224061032	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	esv2757772	chr1:223935220-224363163	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
8	esv2759000	chr1:223935220-224363163	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 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	chr1:223956600-224004600	Strong transcription	Primary monocytes fromperipheralblood	blood
2	chr1:223956600-224004600	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr1:223956800-223974200	Strong transcription	Primary T cells from cord blood	blood
4	chr1:223956800-223974200	Strong transcription	Liver	Liver
5	chr1:223957000-223983400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:223957200-223972800	Strong transcription	Primary B cells from peripheral blood	blood
7	chr1:223959800-223977600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
8	chr1:223960000-223972200	Strong transcription	Rectal Mucosa Donor 29	rectum
9	chr1:223960200-223970000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr1:223960200-223971800	Strong transcription	Stomach Smooth Muscle	stomach
11	chr1:223960200-223998600	Strong transcription	Fetal Thymus	thymus
12	chr1:223960200-224025400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr1:223960600-223986800	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr1:223960600-223995200	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:223960600-224001400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr1:223960800-223995400	Weak transcription	GM12878-XiMat	blood
17	chr1:223961800-223972200	Strong transcription	Dnd41	blood
18	chr1:223961800-223977200	Strong transcription	Duodenum Mucosa	Duodenum
19	chr1:223961800-224004400	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr1:223962000-223975000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
21	chr1:223962600-223970600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr1:223962600-223983600	Weak transcription	Psoas Muscle	Psoas
23	chr1:223962800-223972600	Strong transcription	Primary B cells from cord blood	blood
24	chr1:223963400-223983800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr1:223964000-223972200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr1:223964000-223985600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr1:223964200-223970800	Weak transcription	Colon Smooth Muscle	Colon
28	chr1:223964200-223974200	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr1:223964200-223980000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
30	chr1:223964400-223970600	Weak transcription	Aorta	Aorta
31	chr1:223964400-223972000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr1:223964400-223972000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr1:223964400-223972000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr1:223964400-223972400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr1:223964400-223972600	Weak transcription	Right Atrium	heart
36	chr1:223964400-223977200	Strong transcription	Primary T helper cells PMA-I stimulated	--
37	chr1:223964400-223979600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr1:223964400-224008000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr1:223964600-223972000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr1:223964600-223976800	Weak transcription	Stomach Mucosa	stomach
41	chr1:223964600-223977000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr1:223965000-223973400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr1:223965400-223970600	Strong transcription	K562	blood
44	chr1:223965400-223970800	Weak transcription	Fetal Heart	heart
45	chr1:223965400-223974200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr1:223965400-223977200	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr1:223965400-223983800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr1:223966400-223970600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr1:223966400-223971000	Weak transcription	HMEC	breast
50	chr1:223966400-223976200	Weak transcription	NHEK	skin

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