Variant report

Variant	rs28409763
Chromosome Location	chr4:82369494-82369495
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1077802	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1077803	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1562138	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2120817	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28464436	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55731068	0.81[ASN][1000 genomes]
rs59383678	0.96[ASN][1000 genomes]
rs6814080	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6839120	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6847612	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs748436	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs755527	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9307783	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999729	chr4:81802554-82627820	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537156	chr4:81802554-82627820	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats 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	7 gene(s)	inside rSNPs	diseases
3	nsv4404	chr4:82340986-82386148	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv829986	chr4:82345163-82509860	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:82345600-82380600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr4:82345800-82385800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:82346200-82375800	Strong transcription	Primary B cells from peripheral blood	blood
4	chr4:82346200-82381600	Strong transcription	Fetal Thymus	thymus
5	chr4:82346600-82380800	Strong transcription	Adipose Nuclei	Adipose
6	chr4:82346600-82386600	Weak transcription	Psoas Muscle	Psoas
7	chr4:82346600-82388400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr4:82346800-82382400	Weak transcription	Fetal Muscle Trunk	muscle
9	chr4:82347000-82375600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr4:82347200-82378800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:82349000-82374800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr4:82349000-82385200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr4:82351000-82377600	Weak transcription	Right Ventricle	heart
14	chr4:82351800-82375000	Weak transcription	Pancreas	Pancrea
15	chr4:82351800-82382800	Weak transcription	Spleen	Spleen
16	chr4:82352400-82390000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr4:82353800-82375200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr4:82354200-82390800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr4:82357400-82372800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr4:82357800-82375400	Strong transcription	Primary T helper cells fromperipheralblood	blood
21	chr4:82358600-82370000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:82358600-82372000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr4:82358600-82374000	Strong transcription	Primary B cells from cord blood	blood
24	chr4:82358800-82380600	Strong transcription	Primary T helper cells PMA-I stimulated	--
25	chr4:82359000-82369600	Strong transcription	Placenta	Placenta
26	chr4:82359000-82370800	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:82359000-82375200	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr4:82359200-82369800	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr4:82359200-82370600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr4:82359200-82375600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr4:82359200-82381000	Strong transcription	Primary T cells from cord blood	blood
32	chr4:82359800-82371200	Strong transcription	Brain Anterior Caudate	brain
33	chr4:82360000-82374400	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr4:82360400-82370000	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr4:82360400-82370800	Strong transcription	Primary hematopoietic stem cells	blood
36	chr4:82360600-82369600	Strong transcription	Brain Inferior Temporal Lobe	brain
37	chr4:82361200-82371200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr4:82361200-82376400	Weak transcription	Aorta	Aorta
39	chr4:82361200-82382800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr4:82361400-82386600	Weak transcription	Fetal Kidney	kidney
41	chr4:82362000-82373800	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr4:82362200-82389800	Weak transcription	Fetal Brain Male	brain
43	chr4:82362400-82371800	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr4:82362600-82380200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr4:82363600-82390400	Weak transcription	Fetal Muscle Leg	muscle
46	chr4:82363600-82391000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr4:82364200-82369600	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr4:82364200-82373600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr4:82364800-82369600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr4:82364800-82370000	Strong transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links