Variant report

Variant	rs11084860
Chromosome Location	chr19:37072766-37072767
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	chr19:37062757..37066475-chr19:37067178..37075829,11	K562	blood:
2	chr19:37065150..37067798-chr19:37072514..37074047,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF529-2	chr19:37071155-37073606	NONHSAT066017

Variant related genes	Relation type
ENSG00000186020	Chromatin interaction
ENSG00000233527	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1054520	1.00[ASN][1000 genomes]
rs2385654	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2385655	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2967465	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34642314	1.00[ASN][1000 genomes]
rs45573837	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45625538	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58847706	1.00[ASN][1000 genomes]
rs73928559	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73928560	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73928561	0.84[EUR][1000 genomes];1.00[ASN][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	nsv1064851	chr19:36910259-37689721	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer 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	62 gene(s)	inside rSNPs	diseases
2	nsv1065698	chr19:36916796-37690124	Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv543999	chr19:36916796-37690124	Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv529817	chr19:36930549-37654062	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
5	nsv833817	chr19:36978852-37195695	ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
6	nsv918028	chr19:37020645-38014526	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
7	esv3334779	chr19:37050161-37076919	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11084860	ZNF567	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:37065600-37081200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr19:37065600-37095400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr19:37065800-37075200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr19:37065800-37076600	Weak transcription	Stomach Mucosa	stomach
5	chr19:37065800-37078200	Weak transcription	Right Ventricle	heart
6	chr19:37066000-37081200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr19:37066000-37081200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr19:37066200-37073200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr19:37066600-37073200	Strong transcription	Fetal Muscle Leg	muscle
10	chr19:37066600-37073400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
11	chr19:37066600-37073400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr19:37066600-37073400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
13	chr19:37066600-37074200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr19:37066600-37074200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
15	chr19:37066600-37080600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr19:37066800-37074400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr19:37066800-37081000	Strong transcription	Dnd41	blood
18	chr19:37066800-37091400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr19:37067000-37073200	Strong transcription	Placenta	Placenta
20	chr19:37067000-37073800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr19:37067000-37076200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr19:37067000-37076800	ZNF genes & repeats	GM12878-XiMat	blood
23	chr19:37067000-37080800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr19:37067000-37081200	ZNF genes & repeats	Liver	Liver
25	chr19:37067000-37081200	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
26	chr19:37067400-37072800	Strong transcription	Fetal Thymus	thymus
27	chr19:37067400-37074600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
28	chr19:37067800-37072800	Strong transcription	Skeletal Muscle Male	skeletal muscle
29	chr19:37067800-37074600	ZNF genes & repeats	Primary B cells from cord blood	blood
30	chr19:37068000-37072800	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
31	chr19:37068000-37073200	ZNF genes & repeats	Adipose Nuclei	Adipose
32	chr19:37068000-37074000	Strong transcription	Left Ventricle	heart
33	chr19:37068000-37074200	Strong transcription	Primary B cells from peripheral blood	blood
34	chr19:37068000-37074600	Strong transcription	Muscle Satellite Cultured Cells	--
35	chr19:37068000-37074800	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr19:37068000-37074800	Strong transcription	Fetal Lung	lung
37	chr19:37068000-37075200	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr19:37068200-37072800	Strong transcription	Brain Inferior Temporal Lobe	brain
39	chr19:37068200-37073000	Strong transcription	Brain Cingulate Gyrus	brain
40	chr19:37068400-37073400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr19:37068600-37072800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr19:37068800-37072800	Strong transcription	Rectal Smooth Muscle	rectum
43	chr19:37068800-37076000	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr19:37068800-37083000	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr19:37069600-37072800	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
46	chr19:37070000-37095400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr19:37070200-37072800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr19:37070200-37073000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr19:37070200-37073200	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
50	chr19:37070200-37073400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links