Variant report

Variant	rs6797965
Chromosome Location	chr3:179425069-179425070
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs13097252	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13322033	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13326216	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2268933	0.86[CHB][hapmap]
rs2268941	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2268942	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2300772	0.86[CHB][hapmap]
rs34197007	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35934212	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4854945	1.00[CHB][hapmap]
rs6771840	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6785332	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6788786	1.00[CHB][hapmap]
rs6807974	1.00[CHB][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs71310390	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7629853	0.86[CHB][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs800369	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9810165	1.00[CHB][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9810460	1.00[CHB][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9816744	0.81[EUR][1000 genomes]
rs9882786	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv4140	chr3:179383961-179429704	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179372600-179425200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:179384800-179428400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:179384800-179443800	Weak transcription	Esophagus	oesophagus
4	chr3:179385000-179439200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr3:179385000-179448400	Weak transcription	Fetal Brain Male	brain
6	chr3:179391000-179444000	Weak transcription	Pancreas	Pancrea
7	chr3:179391000-179452200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr3:179391400-179426400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr3:179391400-179439200	Weak transcription	NHEK	skin
10	chr3:179397800-179439200	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:179399000-179426400	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr3:179399000-179434000	Weak transcription	A549	lung
13	chr3:179399000-179459800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:179400800-179426800	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr3:179402200-179425200	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:179402600-179428600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr3:179404400-179426600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:179404800-179426600	Weak transcription	GM12878-XiMat	blood
19	chr3:179405800-179429200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr3:179406200-179503000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr3:179406600-179449400	Weak transcription	Spleen	Spleen
22	chr3:179407000-179426400	Weak transcription	NHLF	lung
23	chr3:179407000-179426600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:179407000-179428400	Weak transcription	Osteobl	bone
25	chr3:179407000-179431200	Weak transcription	NH-A	brain
26	chr3:179407200-179425200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr3:179407200-179430800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr3:179407800-179439200	Weak transcription	Brain Angular Gyrus	brain
29	chr3:179408200-179439800	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:179408600-179439400	Weak transcription	Fetal Thymus	thymus
31	chr3:179410000-179426200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr3:179414000-179428400	Weak transcription	Adipose Nuclei	Adipose
33	chr3:179415800-179426800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr3:179416200-179448400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr3:179416400-179428200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr3:179418800-179425200	Weak transcription	Fetal Lung	lung
37	chr3:179419000-179439200	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr3:179419200-179426600	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr3:179419200-179430000	Strong transcription	Primary T cells from cord blood	blood
40	chr3:179419400-179425200	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr3:179419400-179426600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:179419400-179439000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr3:179419600-179425200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr3:179419600-179425200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr3:179419600-179444000	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr3:179419800-179425600	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr3:179419800-179426600	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr3:179420200-179478800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr3:179420400-179425200	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr3:179420600-179426600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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