Variant report

Variant	rs4277659
Chromosome Location	chr3:111467301-111467302
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD96-3	chr3:111466665-111467424	NONHSAT091151

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11916434	1.00[AMR][1000 genomes]
rs11919759	1.00[AMR][1000 genomes]
rs11922755	1.00[AMR][1000 genomes]
rs11925267	1.00[AMR][1000 genomes]
rs11929116	1.00[AMR][1000 genomes]
rs11929149	1.00[AMR][1000 genomes]
rs4308247	1.00[YRI][hapmap]
rs4309695	0.90[AFR][1000 genomes]
rs4396865	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4464420	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4603931	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6438010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6438011	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6762439	1.00[YRI][hapmap]
rs6768626	1.00[YRI][hapmap]
rs6770607	0.90[AFR][1000 genomes]
rs6791845	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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111462600-111468000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:111462600-111468000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:111463000-111469600	Weak transcription	Adipose Nuclei	Adipose
4	chr3:111463800-111468200	Weak transcription	Colon Smooth Muscle	Colon
5	chr3:111465000-111469200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr3:111465200-111468000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:111465200-111468200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:111465200-111468400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:111465400-111469600	Weak transcription	A549	lung
10	chr3:111465400-111470400	Weak transcription	Hela-S3	cervix
11	chr3:111466000-111467400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:111466200-111471400	Enhancers	NHEK	skin
13	chr3:111466400-111467400	Enhancers	Muscle Satellite Cultured Cells	--
14	chr3:111466400-111467400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:111466400-111467400	Enhancers	Gastric	stomach
16	chr3:111466400-111467400	Enhancers	HMEC	breast
17	chr3:111466400-111467400	Enhancers	NH-A	brain
18	chr3:111466400-111467600	Enhancers	HepG2	liver
19	chr3:111466400-111468200	Enhancers	HUVEC	blood vessel
20	chr3:111466400-111469400	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr3:111466400-111469600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:111466400-111471200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:111466400-111471400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:111466600-111467400	Enhancers	Stomach Mucosa	stomach
25	chr3:111466600-111471000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr3:111466800-111467400	Enhancers	Liver	Liver
27	chr3:111466800-111467800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:111466800-111471200	Enhancers	HSMM	muscle
29	chr3:111467000-111467400	Enhancers	Rectal Mucosa Donor 31	rectum
30	chr3:111467000-111467400	Enhancers	Rectal Smooth Muscle	rectum
31	chr3:111467000-111467400	Enhancers	Right Ventricle	heart
32	chr3:111467000-111467800	Enhancers	Fetal Muscle Leg	muscle
33	chr3:111467000-111469000	Enhancers	Fetal Kidney	kidney
34	chr3:111467200-111467400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:111467200-111467400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr3:111467200-111467400	Enhancers	Placenta Amnion	Placenta Amnion
37	chr3:111467200-111467800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr3:111467200-111467800	Enhancers	Fetal Muscle Trunk	muscle
39	chr3:111467200-111468200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr3:111467200-111468200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr3:111467200-111468200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:111467200-111468200	Weak transcription	Osteobl	bone
43	chr3:111467200-111468800	Weak transcription	NHDF-Ad	bronchial
44	chr3:111467200-111469600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr3:111467200-111470600	Weak transcription	Small Intestine	intestine

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