Variant report

Variant	rs7687678
Chromosome Location	chr4:151285339-151285340
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10003215	0.80[AMR][1000 genomes]
rs10004618	0.80[AMR][1000 genomes]
rs10007367	0.82[AMR][1000 genomes]
rs10007538	0.80[AMR][1000 genomes]
rs10010611	0.82[AMR][1000 genomes]
rs10010954	0.87[GIH][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes]
rs10018151	0.80[AMR][1000 genomes]
rs10222778	0.82[AMR][1000 genomes]
rs10471054	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10520063	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1080194	0.80[AMR][1000 genomes]
rs12331959	0.82[AMR][1000 genomes]
rs13132429	0.85[AMR][1000 genomes]
rs13136928	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13145548	0.80[AFR][1000 genomes]
rs1459743	0.87[GIH][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs1507189	0.92[EUR][1000 genomes]
rs1546417	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17632215	0.82[CEU][hapmap];0.87[JPT][hapmap];0.90[MEX][hapmap];0.85[AMR][1000 genomes]
rs17688556	0.82[AMR][1000 genomes]
rs17688594	0.82[AMR][1000 genomes]
rs1960919	0.89[EUR][1000 genomes]
rs2055688	0.90[AMR][1000 genomes]
rs2359928	0.80[AMR][1000 genomes]
rs2359941	0.89[EUR][1000 genomes]
rs28885675	0.80[AMR][1000 genomes]
rs4458434	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4696085	0.82[AMR][1000 genomes]
rs4696254	0.88[EUR][1000 genomes]
rs56145629	0.82[AMR][1000 genomes]
rs57529227	0.81[AMR][1000 genomes]
rs59545554	0.82[AMR][1000 genomes]
rs6535729	0.88[AMR][1000 genomes]
rs6535730	0.98[GIH][hapmap];0.83[TSI][hapmap];0.84[AMR][1000 genomes]
rs6535731	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6535732	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6535733	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6843645	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6844752	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7657948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7659675	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7683815	0.94[EUR][1000 genomes]
rs7691809	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7692491	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs995227	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932022	chr4:150831733-151419552	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1032689	chr4:150971003-151316856	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv537300	chr4:150971003-151316856	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv880256	chr4:151126725-151751369	Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv880259	chr4:151210761-151367745	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv880260	chr4:151214038-151331191	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv817540	chr4:151228965-151858609	Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv830112	chr4:151243801-151431771	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:151243000-151312000	Weak transcription	Primary B cells from cord blood	blood
2	chr4:151244200-151300600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:151262400-151311200	Weak transcription	Primary T cells from cord blood	blood
4	chr4:151268800-151293800	Weak transcription	Fetal Intestine Small	intestine
5	chr4:151269800-151300600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr4:151272000-151293800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:151272000-151298600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr4:151272000-151371400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr4:151272400-151294000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr4:151275400-151287600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:151277800-151287000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr4:151278600-151285400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr4:151279200-151298000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr4:151279400-151287800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr4:151280600-151287600	Weak transcription	Fetal Stomach	stomach
16	chr4:151280600-151289200	Weak transcription	Fetal Lung	lung
17	chr4:151282000-151287800	Weak transcription	Ovary	ovary
18	chr4:151282200-151287400	Weak transcription	Colon Smooth Muscle	Colon
19	chr4:151282400-151287400	Weak transcription	Fetal Heart	heart
20	chr4:151284800-151285600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:151284800-151285600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr4:151284800-151287200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr4:151285200-151285400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr4:151285200-151285400	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr4:151285200-151285600	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr4:151285200-151285600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr4:151285200-151285800	Enhancers	HSMM	muscle
28	chr4:151285200-151286000	Enhancers	GM12878-XiMat	blood
29	chr4:151285200-151286200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr4:151285200-151287400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr4:151285200-151287600	Weak transcription	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links