Variant report

Variant	rs17757606
Chromosome Location	chr6:56374351-56374352
allele	C/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:14)

rs_ID	r²[population]
rs12662511	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12663437	0.82[ASN][1000 genomes]
rs1323322	0.82[ASN][1000 genomes]
rs16887983	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs17757660	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17830661	1.00[ASN][1000 genomes]
rs17830685	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17830715	0.97[ASN][1000 genomes]
rs17830726	0.97[ASN][1000 genomes]
rs17830810	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3800026	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4256439	0.97[ASN][1000 genomes]
rs4288197	0.95[ASN][1000 genomes]
rs7769014	0.97[ASN][1000 genomes]

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	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking 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	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS 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	9 gene(s)	inside rSNPs	diseases
3	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56337600-56376000	Weak transcription	Gastric	stomach
2	chr6:56341800-56407400	Weak transcription	Spleen	Spleen
3	chr6:56345000-56384200	Strong transcription	HUES64 Cell Line	embryonic stem cell
4	chr6:56348600-56374600	Strong transcription	Fetal Intestine Large	intestine
5	chr6:56351800-56386800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:56357000-56382600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr6:56357000-56383600	Strong transcription	NH-A	brain
8	chr6:56357000-56384000	Strong transcription	HSMM	muscle
9	chr6:56357200-56384200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:56360400-56382200	Strong transcription	Osteobl	bone
11	chr6:56360600-56381800	Strong transcription	Muscle Satellite Cultured Cells	--
12	chr6:56360800-56377200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:56362400-56391200	Weak transcription	Esophagus	oesophagus
14	chr6:56362600-56385800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr6:56362800-56400200	Weak transcription	Colonic Mucosa	Colon
16	chr6:56363000-56402200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr6:56364800-56378600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:56365600-56379400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr6:56367000-56376600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:56368400-56376800	Strong transcription	GM12878-XiMat	blood
21	chr6:56368400-56382400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:56368600-56375400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr6:56369400-56378800	Strong transcription	Fetal Muscle Trunk	muscle
24	chr6:56369400-56380600	Strong transcription	HSMMtube	muscle
25	chr6:56369600-56374800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:56369600-56375000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr6:56369800-56374800	Strong transcription	Rectal Mucosa Donor 31	rectum
28	chr6:56370000-56374400	Strong transcription	Placenta Amnion	Placenta Amnion
29	chr6:56370000-56374800	Strong transcription	H1 Cell Line	embryonic stem cell
30	chr6:56370000-56374800	Strong transcription	HUVEC	blood vessel
31	chr6:56370000-56378000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:56370000-56382600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
33	chr6:56370600-56374400	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr6:56370600-56380400	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr6:56371000-56374600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:56371000-56374600	Strong transcription	Duodenum Mucosa	Duodenum
37	chr6:56371000-56374600	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr6:56371000-56374800	Strong transcription	HUES6 Cell Line	embryonic stem cell
39	chr6:56371000-56375200	Strong transcription	Fetal Kidney	kidney
40	chr6:56371000-56378000	Enhancers	Fetal Heart	heart
41	chr6:56371200-56375200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr6:56371200-56380200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:56371400-56376200	Weak transcription	Small Intestine	intestine
44	chr6:56371800-56374600	Strong transcription	Fetal Brain Male	brain
45	chr6:56371800-56375400	Strong transcription	Fetal Lung	lung
46	chr6:56372000-56374600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
47	chr6:56372200-56374400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:56372200-56374400	Strong transcription	A549	lung
49	chr6:56372200-56374800	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr6:56372200-56374800	Strong transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links