Variant report

Variant	rs10041870
Chromosome Location	chr5:9431644-9431645
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10475467	0.85[YRI][hapmap]
rs12520208	0.96[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12520210	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13174956	1.00[CEU][hapmap];0.82[CHB][hapmap];0.91[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17258493	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2135074	1.00[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3846587	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs4701846	0.96[CEU][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4702626	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6887921	0.91[CEU][hapmap];0.82[JPT][hapmap]
rs979581	0.87[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881438	chr5:8728874-9695667	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1015378	chr5:9053542-9617963	Genic enhancers Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
3	nsv537640	chr5:9053542-9617963	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
4	nsv597071	chr5:9182376-9760599	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1032672	chr5:9182409-9843893	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv1035075	chr5:9182584-9843723	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv537641	chr5:9182584-9843723	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
8	nsv1034637	chr5:9182784-9741743	Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv537642	chr5:9182784-9741743	Enhancers Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
10	nsv1028656	chr5:9196001-9837040	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
11	nsv1016885	chr5:9218932-9575594	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv1026078	chr5:9222811-9591290	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv1022137	chr5:9225121-9745434	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
14	nsv537643	chr5:9225121-9745434	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv1022574	chr5:9314645-9647238	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
16	nsv597072	chr5:9423834-9438566	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:9379000-9434800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr5:9379000-9436200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr5:9395800-9450200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr5:9398600-9435600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr5:9417800-9438600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr5:9422800-9437000	Weak transcription	Aorta	Aorta
7	chr5:9423400-9431800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr5:9427200-9433000	Enhancers	Fetal Lung	lung
9	chr5:9427400-9432000	Enhancers	Fetal Heart	heart
10	chr5:9427800-9437000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr5:9427800-9439000	Weak transcription	Left Ventricle	heart
12	chr5:9429200-9432400	Enhancers	Right Ventricle	heart
13	chr5:9429600-9432200	Enhancers	Brain Substantia Nigra	brain
14	chr5:9429800-9432800	Enhancers	Ovary	ovary
15	chr5:9429800-9433000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr5:9430200-9432800	Enhancers	NHLF	lung
17	chr5:9430200-9433000	Enhancers	NHDF-Ad	bronchial
18	chr5:9430400-9432400	Enhancers	Brain Anterior Caudate	brain
19	chr5:9430400-9432400	Enhancers	Brain Inferior Temporal Lobe	brain
20	chr5:9430400-9432600	Enhancers	Brain Cingulate Gyrus	brain
21	chr5:9430400-9432600	Enhancers	Brain Hippocampus Middle	brain
22	chr5:9430400-9433000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr5:9430600-9432000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:9430600-9432400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
25	chr5:9430600-9432400	Enhancers	Fetal Muscle Leg	muscle
26	chr5:9430600-9432600	Enhancers	Liver	Liver
27	chr5:9430600-9432800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr5:9430600-9432800	Enhancers	Fetal Stomach	stomach
29	chr5:9430600-9433000	Enhancers	Fetal Intestine Large	intestine
30	chr5:9430800-9431800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr5:9430800-9431800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr5:9430800-9432000	Weak transcription	Brain Angular Gyrus	brain
33	chr5:9430800-9432400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr5:9430800-9433000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr5:9430800-9436200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr5:9430800-9441800	Weak transcription	Esophagus	oesophagus
37	chr5:9431000-9431800	Enhancers	Osteobl	bone
38	chr5:9431000-9432400	Enhancers	Muscle Satellite Cultured Cells	--
39	chr5:9431200-9432000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr5:9431200-9432400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr5:9431400-9431800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr5:9431400-9432000	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr5:9431400-9432200	Enhancers	HSMMtube	muscle
44	chr5:9431400-9432600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr5:9431400-9432600	Enhancers	Fetal Kidney	kidney
46	chr5:9431400-9432600	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr5:9431400-9432800	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr5:9431400-9432800	Enhancers	Fetal Intestine Small	intestine
49	chr5:9431400-9433000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr5:9431400-9433000	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links