Variant report

Variant	rs28688993
Chromosome Location	chr14:35098277-35098278
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:35096806..35099646-chr14:35341739..35344917,3	MCF-7	breast:
2	chr14:35098073..35100471-chr14:35183193..35185773,2	MCF-7	breast:
3	chr14:35097214..35099771-chr14:35162198..35164288,2	MCF-7	breast:
4	chr14:35073851..35075932-chr14:35096822..35098644,2	MCF-7	breast:
5	chr14:35097716..35101474-chr14:35182604..35185285,4	MCF-7	breast:
6	chr14:35097894..35099748-chr14:35341381..35343942,2	K562	blood:
7	chr14:35022750..35025769-chr14:35096151..35100054,3	MCF-7	breast:
8	chr14:35088009..35090239-chr14:35096440..35098532,2	K562	blood:
9	chr14:35096618..35098703-chr14:35872818..35874981,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000198604	Chromatin interaction
ENSG00000258738	Chromatin interaction
ENSG00000100906	Chromatin interaction
ENSG00000206588	Chromatin interaction
ENSG00000241582	Chromatin interaction
ENSG00000165410	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10129588	0.88[EUR][1000 genomes]
rs10145193	0.87[EUR][1000 genomes]
rs10151057	0.87[EUR][1000 genomes]
rs10151255	0.86[EUR][1000 genomes]
rs10151653	0.89[EUR][1000 genomes]
rs10151959	0.87[EUR][1000 genomes]
rs10431614	0.96[EUR][1000 genomes]
rs10872888	0.82[EUR][1000 genomes]
rs10872889	0.81[EUR][1000 genomes]
rs11156851	0.86[EUR][1000 genomes]
rs11847241	0.87[EUR][1000 genomes]
rs11847568	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12881535	0.89[ASN][1000 genomes]
rs34755567	0.87[EUR][1000 genomes]
rs36068893	0.87[EUR][1000 genomes]
rs3809450	0.87[EUR][1000 genomes]
rs3809451	0.87[EUR][1000 genomes]
rs3809452	0.85[EUR][1000 genomes]
rs3923104	0.85[EUR][1000 genomes]
rs3958	0.83[EUR][1000 genomes]
rs4312221	0.84[EUR][1000 genomes]
rs4347522	0.92[EUR][1000 genomes]
rs4981245	0.80[EUR][1000 genomes]
rs4982192	0.87[EUR][1000 genomes]
rs4982194	0.87[EUR][1000 genomes]
rs4982195	0.87[EUR][1000 genomes]
rs4982196	0.87[EUR][1000 genomes]
rs4982197	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61553463	0.95[EUR][1000 genomes]
rs61979724	0.95[EUR][1000 genomes]
rs6650498	0.95[EUR][1000 genomes]
rs71421903	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7144356	0.87[EUR][1000 genomes]
rs7153918	0.89[EUR][1000 genomes]
rs7161203	0.86[EUR][1000 genomes]
rs7161260	0.87[EUR][1000 genomes]
rs8021267	0.89[EUR][1000 genomes]
rs9652316	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040980	chr14:34345018-35255592	Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
2	nsv1048408	chr14:34958352-35255592	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	esv3392700	chr14:34989406-35365530	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	nsv1040303	chr14:35040853-35101044	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv542027	chr14:35040853-35101044	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv1038360	chr14:35040853-35152886	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	esv3408652	chr14:35069966-35110821	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv523334	chr14:35075022-35131862	Flanking Active TSS Strong transcription Active TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv1041857	chr14:35084889-35417180	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 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	chr14:35054600-35098400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr14:35063000-35098400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr14:35070400-35098600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr14:35077000-35098600	Weak transcription	Pancreas	Pancrea
5	chr14:35077600-35098600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr14:35078200-35098600	Weak transcription	Gastric	stomach
7	chr14:35097000-35098400	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr14:35097600-35098400	Enhancers	Primary B cells from peripheral blood	blood
9	chr14:35097600-35098400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr14:35097600-35098400	Enhancers	Stomach Mucosa	stomach
11	chr14:35097600-35098400	Enhancers	Spleen	Spleen
12	chr14:35097600-35098600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr14:35097600-35098600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
14	chr14:35097600-35098600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
15	chr14:35097600-35098600	Enhancers	Lung	lung
16	chr14:35097600-35100000	Active TSS	NHLF	lung
17	chr14:35097800-35098400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr14:35097800-35098400	Flanking Active TSS	Brain Germinal Matrix	brain
19	chr14:35097800-35098400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
20	chr14:35097800-35098400	Flanking Active TSS	A549	lung
21	chr14:35097800-35098400	Flanking Active TSS	HepG2	liver
22	chr14:35097800-35098600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
23	chr14:35097800-35098600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
24	chr14:35097800-35098600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr14:35097800-35098600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr14:35097800-35098600	Flanking Active TSS	Brain Anterior Caudate	brain
27	chr14:35097800-35098600	Flanking Active TSS	Brain Cingulate Gyrus	brain
28	chr14:35097800-35098600	Flanking Active TSS	Duodenum Mucosa	Duodenum
29	chr14:35097800-35098600	Flanking Active TSS	Fetal Brain Female	brain
30	chr14:35097800-35098600	Flanking Active TSS	Dnd41	blood
31	chr14:35097800-35098600	Flanking Active TSS	NHEK	skin
32	chr14:35097800-35098800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr14:35097800-35098800	Flanking Active TSS	Primary T cells from cord blood	blood
34	chr14:35097800-35098800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr14:35097800-35098800	Flanking Active TSS	HUVEC	blood vessel
36	chr14:35097800-35099000	Flanking Active TSS	Primary B cells from cord blood	blood
37	chr14:35097800-35099600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr14:35097800-35099800	Active TSS	K562	blood
39	chr14:35097800-35099800	Active TSS	NHDF-Ad	bronchial
40	chr14:35097800-35100000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr14:35097800-35100000	Active TSS	Pancreatic Islets	Pancreatic Islet
42	chr14:35097800-35100000	Active TSS	GM12878-XiMat	blood
43	chr14:35098000-35098400	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr14:35098000-35098400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
45	chr14:35098000-35098400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr14:35098000-35098400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
47	chr14:35098000-35098400	Enhancers	Primary hematopoietic stem cells	blood
48	chr14:35098000-35098400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
49	chr14:35098000-35098400	Flanking Active TSS	Colon Smooth Muscle	Colon
50	chr14:35098000-35098400	Flanking Active TSS	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links