Variant report

Variant	rs59938922
Chromosome Location	chr1:155650787-155650788
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:155649685..155651482-chr1:155656249..155657899,2	MCF-7	breast:
2	chr1:155646937..155653370-chr1:155653884..155660272,11	K562	blood:
3	chr1:155650232..155654143-chr1:155656732..155660370,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163374	Chromatin interaction
ENSG00000132676	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs58816734	0.95[AFR][1000 genomes]
rs6667819	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72997183	0.95[AFR][1000 genomes]
rs72997201	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72997202	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72999012	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72999050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72999069	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7534941	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7535114	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	esv3431739	chr1:155514331-155664183	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	esv3388968	chr1:155532335-155658278	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats 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 miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv1002390	chr1:155553423-155706930	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv428246	chr1:155558197-155785831	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats 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	43 gene(s)	inside rSNPs	diseases
7	nsv436522	chr1:155559513-155674249	Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
8	esv3360339	chr1:155562157-155683127	Active TSS Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
9	nsv547965	chr1:155563152-155688600	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
10	esv3381327	chr1:155582853-155718436	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	esv3436971	chr1:155618172-155733386	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
12	esv3338099	chr1:155618190-155733359	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155627000-155657600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:155627200-155651600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:155627200-155654000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr1:155627600-155653600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:155628000-155650800	Strong transcription	Primary T cells from cord blood	blood
6	chr1:155628000-155650800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr1:155628000-155650800	Strong transcription	Placenta	Placenta
8	chr1:155628000-155651600	Strong transcription	Adipose Nuclei	Adipose
9	chr1:155628000-155652000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr1:155628000-155652000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr1:155628000-155653800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr1:155628000-155654600	Strong transcription	Fetal Thymus	thymus
13	chr1:155628200-155650800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr1:155628200-155650800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr1:155628200-155650800	Strong transcription	Duodenum Mucosa	Duodenum
16	chr1:155628200-155651000	Strong transcription	Primary neutrophils fromperipheralblood	blood
17	chr1:155628200-155651000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr1:155628200-155651200	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr1:155628200-155651200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr1:155628200-155653200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr1:155628400-155650800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr1:155628400-155653200	Strong transcription	Primary T cells fromperipheralblood	blood
23	chr1:155628600-155650800	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr1:155628600-155651400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr1:155632000-155653200	Weak transcription	Right Atrium	heart
26	chr1:155632600-155651600	Strong transcription	HepG2	liver
27	chr1:155632800-155656200	Weak transcription	Stomach Mucosa	stomach
28	chr1:155634600-155657800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr1:155635400-155651400	Strong transcription	Primary B cells from cord blood	blood
30	chr1:155635400-155651800	Strong transcription	Dnd41	blood
31	chr1:155638600-155650800	Strong transcription	Muscle Satellite Cultured Cells	--
32	chr1:155640000-155653600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr1:155640200-155650800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr1:155641000-155651400	Strong transcription	A549	lung
35	chr1:155642600-155653200	Strong transcription	Fetal Muscle Trunk	muscle
36	chr1:155643000-155651800	Strong transcription	Fetal Muscle Leg	muscle
37	chr1:155643200-155651400	Strong transcription	Liver	Liver
38	chr1:155643600-155653200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr1:155644400-155653400	Strong transcription	K562	blood
40	chr1:155645000-155653200	Weak transcription	Small Intestine	intestine
41	chr1:155645000-155656200	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr1:155645200-155657200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr1:155645400-155655600	Weak transcription	Psoas Muscle	Psoas
44	chr1:155645600-155651400	Strong transcription	Brain Angular Gyrus	brain
45	chr1:155645600-155653600	Weak transcription	Right Ventricle	heart
46	chr1:155646000-155653600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr1:155646000-155655000	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr1:155646200-155654200	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr1:155646600-155650800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr1:155646600-155651800	Strong transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links