Variant report

Variant	rs16928481
Chromosome Location	chr12:1589463-1589464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:1588629..1590747-chr12:1599822..1601479,2	K562	blood:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11061763	1.00[ASN][1000 genomes]
rs12300475	1.00[ASN][1000 genomes]
rs12309872	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12318883	1.00[ASN][1000 genomes]
rs12319342	1.00[ASN][1000 genomes]
rs12319376	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16927897	1.00[ASN][1000 genomes]
rs16928432	0.89[CEU][hapmap]
rs16928476	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs16928479	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16928482	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17800906	0.89[CEU][hapmap];1.00[JPT][hapmap]
rs2057801	1.00[ASN][1000 genomes]
rs58023561	1.00[ASN][1000 genomes]
rs59394469	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6489287	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7969825	0.89[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7973613	0.88[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045278	chr12:920251-1697030	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv529398	chr12:941915-1741311	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1046134	chr12:1153489-1675223	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv541344	chr12:1153489-1675223	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv1042863	chr12:1163817-1902302	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv541345	chr12:1163817-1902302	Strong transcription Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv1054178	chr12:1372157-1682699	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
8	nsv541347	chr12:1372157-1682699	Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv1035935	chr12:1400974-1608625	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
10	esv3397478	chr12:1535455-1730159	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
11	nsv573	chr12:1560167-1604539	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1049247	chr12:1566534-1671806	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
13	nsv1049391	chr12:1589463-1622803	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:1552800-1598000	Weak transcription	Esophagus	oesophagus
2	chr12:1558400-1599400	Weak transcription	Pancreas	Pancrea
3	chr12:1567400-1599600	Weak transcription	Gastric	stomach
4	chr12:1575200-1590000	Weak transcription	Liver	Liver
5	chr12:1579200-1598200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr12:1579600-1600200	Weak transcription	K562	blood
7	chr12:1583200-1597400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr12:1583200-1599000	Weak transcription	Primary B cells from peripheral blood	blood
9	chr12:1583400-1596000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr12:1583400-1596200	Weak transcription	Primary T cells from cord blood	blood
11	chr12:1583400-1599400	Weak transcription	HepG2	liver
12	chr12:1583400-1602800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr12:1583600-1591800	Weak transcription	Fetal Intestine Small	intestine
14	chr12:1583600-1596200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr12:1583600-1597200	Weak transcription	Thymus	Thymus
16	chr12:1583800-1596800	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr12:1584000-1598000	Weak transcription	Aorta	Aorta
18	chr12:1584000-1599200	Weak transcription	Fetal Muscle Trunk	muscle
19	chr12:1584000-1599200	Weak transcription	Lung	lung
20	chr12:1584000-1599400	Weak transcription	Brain Cingulate Gyrus	brain
21	chr12:1584200-1597800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr12:1584200-1597800	Weak transcription	Brain Anterior Caudate	brain
23	chr12:1584200-1598000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr12:1584200-1598400	Weak transcription	Fetal Muscle Leg	muscle
25	chr12:1584200-1598800	Weak transcription	Left Ventricle	heart
26	chr12:1584200-1598800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr12:1584200-1599000	Weak transcription	Brain Angular Gyrus	brain
28	chr12:1584200-1599400	Weak transcription	Right Ventricle	heart
29	chr12:1584400-1591000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr12:1584400-1598000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr12:1584400-1599000	Weak transcription	Primary hematopoietic stem cells	blood
32	chr12:1584400-1599600	Weak transcription	Ovary	ovary
33	chr12:1584600-1591200	Weak transcription	Fetal Stomach	stomach
34	chr12:1584600-1599200	Weak transcription	Brain Hippocampus Middle	brain
35	chr12:1584800-1590000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr12:1584800-1597600	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr12:1584800-1598200	Weak transcription	Fetal Brain Female	brain
38	chr12:1584800-1599000	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr12:1584800-1599200	Weak transcription	Colon Smooth Muscle	Colon
40	chr12:1584800-1599400	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr12:1584800-1601400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr12:1584800-1604600	Weak transcription	Fetal Kidney	kidney
43	chr12:1585000-1590200	Weak transcription	Fetal Lung	lung
44	chr12:1585000-1590600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr12:1585000-1590600	Weak transcription	HSMMtube	muscle
46	chr12:1585000-1597400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr12:1585000-1597800	Weak transcription	NH-A	brain
48	chr12:1585000-1598600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr12:1585000-1599400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr12:1585000-1599400	Weak transcription	Fetal Brain Male	brain

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