Variant report

Variant	rs35321042
Chromosome Location	chr2:40663362-40663363
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:40662045..40663958-chr2:40665740..40668580,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12999886	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13031545	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13031785	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13031843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13031849	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13035085	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17025999	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17026001	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17026003	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17026005	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17026009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17026011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17026012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17026014	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17026018	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34038561	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34682370	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35478019	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35797248	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35923316	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4993292	0.97[ASN][1000 genomes]
rs57193459	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61629255	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71439297	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71439298	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71439299	0.83[AMR][1000 genomes];0.87[EUR][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	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873911	chr2:40423454-41161464	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv2757794	chr2:40547947-40733776	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv2759044	chr2:40547947-40733776	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40646600-40670800	Weak transcription	Fetal Brain Female	brain
2	chr2:40648000-40667200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr2:40648200-40676400	Weak transcription	Fetal Kidney	kidney
4	chr2:40653000-40674800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr2:40655000-40665000	Weak transcription	Fetal Brain Male	brain
6	chr2:40657000-40671200	Weak transcription	Fetal Stomach	stomach
7	chr2:40657800-40666600	Enhancers	Colon Smooth Muscle	Colon
8	chr2:40658000-40663600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr2:40658000-40664000	Enhancers	NHDF-Ad	bronchial
10	chr2:40658000-40664200	Enhancers	HMEC	breast
11	chr2:40658200-40663400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr2:40658200-40663600	Enhancers	Osteobl	bone
13	chr2:40658200-40665400	Enhancers	NHLF	lung
14	chr2:40658400-40663600	Enhancers	Adipose Nuclei	Adipose
15	chr2:40658600-40663400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:40658600-40663800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr2:40659200-40663400	Enhancers	Hela-S3	cervix
18	chr2:40659800-40664000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr2:40659800-40665600	Weak transcription	Dnd41	blood
20	chr2:40660200-40663400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr2:40660200-40663400	Enhancers	HSMM	muscle
22	chr2:40660600-40663800	Enhancers	HUVEC	blood vessel
23	chr2:40660800-40663600	Enhancers	Aorta	Aorta
24	chr2:40660800-40664600	Enhancers	Left Ventricle	heart
25	chr2:40661000-40664600	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr2:40661600-40663600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr2:40661800-40663400	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr2:40661800-40666000	Enhancers	Rectal Smooth Muscle	rectum
29	chr2:40662000-40663400	Enhancers	Placenta	Placenta
30	chr2:40662000-40663600	Enhancers	Brain Anterior Caudate	brain
31	chr2:40662200-40663800	Enhancers	NHEK	skin
32	chr2:40662200-40665800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr2:40662400-40663400	Weak transcription	Right Ventricle	heart
34	chr2:40662400-40665000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr2:40662400-40665200	Enhancers	Stomach Smooth Muscle	stomach
36	chr2:40662600-40663400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
37	chr2:40662600-40663800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr2:40662600-40663800	Enhancers	NH-A	brain
39	chr2:40662600-40667800	Weak transcription	Primary B cells from cord blood	blood
40	chr2:40662600-40677200	Weak transcription	Fetal Muscle Leg	muscle
41	chr2:40662800-40663400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
42	chr2:40662800-40663600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:40662800-40663600	Weak transcription	Right Atrium	heart
44	chr2:40662800-40663800	Enhancers	Muscle Satellite Cultured Cells	--
45	chr2:40662800-40663800	Enhancers	A549	lung
46	chr2:40662800-40663800	Enhancers	HSMMtube	muscle
47	chr2:40663000-40665200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr2:40663200-40663600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr2:40663200-40663600	Flanking Active TSS	Fetal Heart	heart
50	chr2:40663200-40664200	Enhancers	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links