Variant report

Variant	rs6853163
Chromosome Location	chr4:27023347-27023348
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10489056	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16878680	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17570273	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17631961	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2110223	0.85[EUR][1000 genomes]
rs28688827	0.93[AFR][1000 genomes]
rs28819422	0.88[AFR][1000 genomes]
rs28850050	0.88[AFR][1000 genomes]
rs36053391	1.00[ASN][1000 genomes]
rs61075882	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7654663	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7670910	1.00[ASN][1000 genomes]
rs7679544	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7689377	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7700093	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9997247	1.00[YRI][hapmap];0.93[AFR][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	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26989400-27024800	Weak transcription	Psoas Muscle	Psoas
2	chr4:26989600-27027000	Weak transcription	HepG2	liver
3	chr4:26995000-27028200	Weak transcription	Pancreas	Pancrea
4	chr4:26996400-27026200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr4:27001200-27029600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:27002800-27026000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr4:27004200-27027200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr4:27004800-27025000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr4:27006400-27024200	Weak transcription	Small Intestine	intestine
10	chr4:27006600-27026000	Weak transcription	Fetal Kidney	kidney
11	chr4:27007000-27025800	Weak transcription	Placenta	Placenta
12	chr4:27007800-27025200	Weak transcription	K562	blood
13	chr4:27007800-27026200	Weak transcription	Gastric	stomach
14	chr4:27008000-27024200	Weak transcription	Brain Substantia Nigra	brain
15	chr4:27009600-27026000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr4:27011600-27026600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr4:27011800-27024200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr4:27011800-27024200	Weak transcription	Fetal Brain Male	brain
19	chr4:27012000-27024000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr4:27012000-27026200	Weak transcription	Colonic Mucosa	Colon
21	chr4:27012000-27029200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr4:27013400-27027600	Weak transcription	NHEK	skin
23	chr4:27015400-27024200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr4:27016400-27026400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr4:27017600-27026800	Strong transcription	Primary B cells from cord blood	blood
26	chr4:27018000-27025400	Strong transcription	Primary T cells from cord blood	blood
27	chr4:27018000-27025600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr4:27018000-27025600	Strong transcription	Dnd41	blood
29	chr4:27018000-27028000	Weak transcription	Right Ventricle	heart
30	chr4:27018400-27026400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr4:27018600-27024000	Weak transcription	Osteobl	bone
32	chr4:27018600-27024200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr4:27018600-27026800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr4:27018600-27029000	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr4:27018800-27026400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr4:27018800-27026600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr4:27018800-27028800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr4:27019000-27025000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr4:27019000-27025400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr4:27019000-27025600	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr4:27019000-27026000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr4:27019000-27026800	Strong transcription	Primary B cells from peripheral blood	blood
43	chr4:27019200-27023600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr4:27019200-27025400	Strong transcription	Primary T helper cells PMA-I stimulated	--
45	chr4:27019200-27025400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr4:27019200-27025400	Strong transcription	Fetal Thymus	thymus
47	chr4:27019200-27025600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr4:27019200-27025600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr4:27019200-27025600	Strong transcription	Duodenum Mucosa	Duodenum
50	chr4:27019200-27025600	Strong transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links