Variant report

Variant	rs13421194
Chromosome Location	chr2:111912017-111912018
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:111898288..111899933-chr2:111909236..111912123,2	MCF-7	breast:
2	chr2:111906009..111907724-chr2:111911641..111914017,2	K562	blood:
3	chr2:111908889..111912650-chr2:111913832..111916380,3	MCF-7	breast:
4	chr2:111878060..111879843-chr2:111911872..111914680,2	MCF-7	breast:
5	chr2:111910661..111912271-chr2:111916800..111918815,2	MCF-7	breast:
6	chr2:111911560..111915041-chr2:111915359..111919056,5	K562	blood:

Variant related genes	Relation type
ENSG00000153094	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10165671	0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs10167160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10182176	1.00[AMR][1000 genomes]
rs10189017	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10190492	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10193696	0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10193890	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10196066	0.85[YRI][hapmap];1.00[AMR][1000 genomes]
rs10196162	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10196180	0.90[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10199467	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10201315	0.80[YRI][hapmap]
rs10201912	1.00[ASW][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13384042	0.86[LWK][hapmap];0.80[YRI][hapmap]
rs13388484	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13389130	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13392035	1.00[AMR][1000 genomes]
rs13394484	0.90[YRI][hapmap]
rs13402681	1.00[AMR][1000 genomes]
rs13421457	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28452430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41309782	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56866966	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59094500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60702028	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61178006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6730446	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6739435	1.00[ASW][hapmap];1.00[LWK][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6742633	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6743841	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72948380	1.00[AMR][1000 genomes]
rs72948389	1.00[AMR][1000 genomes]
rs73954946	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954951	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954963	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954965	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954977	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954982	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73954983	0.81[AFR][1000 genomes];1.00[AMR][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	nsv874838	chr2:111376870-112046226	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv834331	chr2:111812139-112004678	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv1803356	chr2:111899783-112662597	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv428402	chr2:111899783-112662597	Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	esv1801950	chr2:111899783-112746937	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
6	esv2757825	chr2:111899783-112746937	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
7	esv2759083	chr2:111899783-112746937	Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:111881200-111912800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:111881800-111919800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr2:111883400-111912600	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr2:111884800-111925400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr2:111890600-111914400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr2:111893600-111913400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr2:111893600-111916800	Weak transcription	HSMM	muscle
8	chr2:111893600-111918600	Weak transcription	Colon Smooth Muscle	Colon
9	chr2:111894200-111917200	Weak transcription	NH-A	brain
10	chr2:111895000-111912800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr2:111897600-111912800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr2:111897600-111913000	Weak transcription	Stomach Mucosa	stomach
13	chr2:111897800-111912400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr2:111897800-111912600	Weak transcription	Brain Anterior Caudate	brain
15	chr2:111897800-111916600	Weak transcription	Psoas Muscle	Psoas
16	chr2:111898200-111912600	Weak transcription	NHEK	skin
17	chr2:111898800-111912400	Weak transcription	HMEC	breast
18	chr2:111898800-111912800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr2:111898800-111920600	Weak transcription	Fetal Kidney	kidney
20	chr2:111902800-111912400	Weak transcription	Hela-S3	cervix
21	chr2:111902800-111915200	Weak transcription	Fetal Brain Female	brain
22	chr2:111904400-111920800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr2:111904800-111912800	Strong transcription	Fetal Thymus	thymus
24	chr2:111905600-111915200	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr2:111906000-111915800	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr2:111906400-111912200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr2:111906400-111914000	Strong transcription	Dnd41	blood
28	chr2:111906400-111919600	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr2:111906600-111914200	Weak transcription	GM12878-XiMat	blood
30	chr2:111906600-111927000	Weak transcription	Rectal Smooth Muscle	rectum
31	chr2:111906800-111918200	Strong transcription	Rectal Mucosa Donor 31	rectum
32	chr2:111907000-111912800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr2:111907200-111913200	Weak transcription	Pancreatic Islets	Pancreatic Islet
34	chr2:111907400-111917000	Strong transcription	Placenta	Placenta
35	chr2:111907400-111920000	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr2:111907400-111920200	Strong transcription	HUES6 Cell Line	embryonic stem cell
37	chr2:111907600-111912600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr2:111907600-111913000	Weak transcription	Primary hematopoietic stem cells	blood
39	chr2:111907600-111913200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr2:111907600-111913400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr2:111907600-111915400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr2:111907600-111919200	Strong transcription	Fetal Intestine Small	intestine
43	chr2:111907600-111919200	Strong transcription	Fetal Stomach	stomach
44	chr2:111907600-111919800	Strong transcription	Primary monocytes fromperipheralblood	blood
45	chr2:111907800-111912800	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr2:111907800-111915200	Strong transcription	H1 Cell Line	embryonic stem cell
47	chr2:111908000-111912200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr2:111908000-111912600	Strong transcription	Thymus	Thymus
49	chr2:111908000-111913400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr2:111908000-111915800	Strong transcription	Primary neutrophils fromperipheralblood	blood

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