Variant report

Variant	rs10142869
Chromosome Location	chr14:56102762-56102763
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:56101889..56105853-chr14:56107857..56111727,3	K562	blood:
2	chr14:56102256..56103857-chr14:56152714..56154637,2	K562	blood:

Variant related genes	Relation type
ENSG00000126777	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10083303	0.83[AFR][1000 genomes]
rs10083353	0.83[AFR][1000 genomes]
rs10083493	1.00[YRI][hapmap]
rs10083499	0.87[YRI][hapmap]
rs10129537	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10133729	0.83[AFR][1000 genomes]
rs10133962	1.00[YRI][hapmap]
rs10135124	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10135600	0.81[AFR][1000 genomes]
rs10137340	0.85[YRI][hapmap]
rs10142497	1.00[YRI][hapmap]
rs10142757	1.00[YRI][hapmap]
rs10142768	1.00[EUR][1000 genomes]
rs10148188	1.00[AMR][1000 genomes]
rs10150498	0.87[YRI][hapmap]
rs10483643	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs11546	0.87[YRI][hapmap]
rs13379264	1.00[AMR][1000 genomes]
rs17683728	0.83[AFR][1000 genomes]
rs17746033	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs17747083	1.00[YRI][hapmap]
rs2274075	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs2296181	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs28366673	1.00[AMR][1000 genomes]
rs28373835	1.00[AMR][1000 genomes]
rs28380739	0.83[AFR][1000 genomes]
rs28392709	0.83[AFR][1000 genomes]
rs28513551	0.83[AFR][1000 genomes]
rs28549152	0.83[AFR][1000 genomes]
rs28581185	0.83[AFR][1000 genomes]
rs28831725	0.83[AFR][1000 genomes]
rs8009608	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs9323289	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs9972177	0.87[YRI][hapmap]
rs9972178	1.00[YRI][hapmap]
rs9972180	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051564	chr14:55895610-56130788	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv542103	chr14:55895610-56130788	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv832804	chr14:56083850-56277632	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:56078600-56148600	Weak transcription	Stomach Mucosa	stomach
2	chr14:56079800-56111400	Strong transcription	Rectal Mucosa Donor 29	rectum
3	chr14:56080800-56110800	Strong transcription	Primary T helper cells PMA-I stimulated	--
4	chr14:56087400-56111800	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr14:56087400-56112200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr14:56087400-56132200	Strong transcription	Dnd41	blood
7	chr14:56087600-56107400	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr14:56087600-56110000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr14:56087600-56145200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr14:56088000-56103600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr14:56088200-56104000	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr14:56088200-56108600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr14:56088200-56129400	Weak transcription	Spleen	Spleen
14	chr14:56088200-56132200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr14:56088400-56103600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr14:56088400-56121600	Weak transcription	Aorta	Aorta
17	chr14:56088400-56121800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr14:56088400-56153200	Weak transcription	Gastric	stomach
19	chr14:56088600-56103600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr14:56090800-56107000	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr14:56091200-56104800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr14:56092800-56135400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr14:56093200-56110000	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr14:56093400-56105000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr14:56093400-56107600	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr14:56093800-56104400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr14:56093800-56110000	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr14:56094200-56102800	Weak transcription	K562	blood
29	chr14:56094200-56110000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr14:56094200-56110200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr14:56094400-56105000	Strong transcription	Adipose Nuclei	Adipose
32	chr14:56094400-56108000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr14:56094400-56109800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr14:56094400-56113000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr14:56094400-56132600	Strong transcription	HSMM	muscle
36	chr14:56094600-56110000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr14:56094600-56110200	Strong transcription	Liver	Liver
38	chr14:56095000-56103000	Weak transcription	Brain Substantia Nigra	brain
39	chr14:56095000-56142200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr14:56096200-56103800	Strong transcription	NHEK	skin
41	chr14:56096200-56112000	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr14:56096600-56109400	Strong transcription	GM12878-XiMat	blood
43	chr14:56097000-56105000	Strong transcription	HepG2	liver
44	chr14:56097200-56103200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr14:56097400-56103000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr14:56097600-56102800	Weak transcription	NHLF	lung
47	chr14:56097600-56115600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr14:56097600-56145200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr14:56097600-56155400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr14:56097800-56103200	Weak transcription	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links