Variant report

Variant	rs13425337
Chromosome Location	chr2:54382487-54382488
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1001296	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10180053	0.87[YRI][hapmap]
rs10181332	1.00[CHB][hapmap]
rs10199041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs10207316	0.87[YRI][hapmap]
rs10207892	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs11125521	1.00[CHB][hapmap]
rs11680886	1.00[CHB][hapmap]
rs11884327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs11884857	1.00[CHB][hapmap]
rs11889527	1.00[CHB][hapmap]
rs11889533	0.81[EUR][1000 genomes]
rs11890605	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11891079	1.00[CHB][hapmap]
rs11896279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs11899522	1.00[ASN][1000 genomes]
rs11904365	1.00[CHB][hapmap]
rs13390377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs13401548	1.00[EUR][1000 genomes]
rs13401719	1.00[CHB][hapmap]
rs13401799	0.82[YRI][hapmap]
rs13407815	0.87[YRI][hapmap]
rs13413850	0.87[YRI][hapmap]
rs13414565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13417267	0.82[YRI][hapmap]
rs13420347	0.87[YRI][hapmap]
rs13421331	0.87[YRI][hapmap]
rs13424808	0.82[YRI][hapmap]
rs17045513	1.00[CHB][hapmap]
rs17045575	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17045645	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17045755	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17189680	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17189743	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs17189799	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1872328	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs2090182	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs4553857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58842028	1.00[ASN][1000 genomes]
rs59531016	1.00[ASN][1000 genomes]
rs6742557	1.00[EUR][1000 genomes]
rs6751340	1.00[CHB][hapmap]
rs6757204	1.00[ASN][1000 genomes]
rs72908723	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72908725	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72908727	0.81[EUR][1000 genomes]
rs72908736	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73935097	1.00[ASN][1000 genomes]
rs7559651	1.00[CHB][hapmap]
rs7562908	1.00[CEU][hapmap]
rs7567556	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7567614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7594400	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7604464	1.00[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001246	chr2:54195654-54434832	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
2	nsv1003205	chr2:54220049-54700843	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	esv2762639	chr2:54220049-54700855	Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1011790	chr2:54220049-54714553	Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1002891	chr2:54227005-54682169	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv535722	chr2:54227005-54682169	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv1011690	chr2:54255361-54700843	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv431069	chr2:54260132-54434049	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	nsv1007731	chr2:54331179-54452329	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
10	nsv535723	chr2:54331179-54452329	Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
11	nsv1006984	chr2:54343466-54384094	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
12	nsv874148	chr2:54344325-54432222	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
13	nsv1000652	chr2:54345892-54469703	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
14	nsv1003889	chr2:54347750-54424601	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
15	nsv582011	chr2:54348704-54384927	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
16	nsv1011433	chr2:54351145-54424601	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
17	nsv1012230	chr2:54351988-54422959	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
18	nsv874149	chr2:54358517-54432222	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:54343400-54388600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr2:54350600-54382600	Weak transcription	Aorta	Aorta
3	chr2:54352200-54411400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:54361400-54389800	Weak transcription	Lung	lung
5	chr2:54362000-54386800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr2:54362000-54416400	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr2:54362200-54391400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr2:54362200-54411200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr2:54362400-54382600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr2:54362400-54386800	Weak transcription	Brain Substantia Nigra	brain
11	chr2:54362600-54382600	Weak transcription	Right Ventricle	heart
12	chr2:54362800-54387000	Weak transcription	Brain Angular Gyrus	brain
13	chr2:54364000-54382600	Weak transcription	HSMM	muscle
14	chr2:54366400-54389200	Weak transcription	Fetal Stomach	stomach
15	chr2:54366400-54391200	Weak transcription	Spleen	Spleen
16	chr2:54366400-54397200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr2:54366600-54409600	Weak transcription	Psoas Muscle	Psoas
18	chr2:54367400-54416600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr2:54367600-54382600	Weak transcription	Primary B cells from cord blood	blood
20	chr2:54368000-54383800	Weak transcription	Gastric	stomach
21	chr2:54369600-54416600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr2:54371400-54387000	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr2:54377400-54391200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr2:54377600-54382600	Weak transcription	Primary T cells from cord blood	blood
25	chr2:54377600-54382600	Weak transcription	Fetal Lung	lung
26	chr2:54377600-54382600	Weak transcription	NHDF-Ad	bronchial
27	chr2:54377600-54386800	Weak transcription	Adipose Nuclei	Adipose
28	chr2:54377800-54382800	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr2:54377800-54387000	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr2:54377800-54387000	Weak transcription	HSMMtube	muscle
31	chr2:54379800-54383800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
32	chr2:54380400-54386800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr2:54380600-54382600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr2:54380600-54429200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr2:54380600-54434400	Weak transcription	Ovary	ovary
36	chr2:54380800-54382600	Weak transcription	Primary hematopoietic stem cells	blood
37	chr2:54380800-54387000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr2:54381000-54382600	Weak transcription	Pancreas	Pancrea
39	chr2:54381800-54382600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr2:54382200-54389200	Weak transcription	Fetal Heart	heart
41	chr2:54382400-54382600	Strong transcription	Left Ventricle	heart
42	chr2:54382400-54382800	ZNF genes & repeats	Brain Anterior Caudate	brain
43	chr2:54382400-54382800	ZNF genes & repeats	Fetal Intestine Small	intestine
44	chr2:54382400-54383000	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
45	chr2:54382400-54383000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr2:54382400-54383000	Strong transcription	Brain Hippocampus Middle	brain
47	chr2:54382400-54383000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr2:54382400-54383000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
49	chr2:54382400-54383400	Strong transcription	Liver	Liver
50	chr2:54382400-54383800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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