Variant report

Variant	rs317866
Chromosome Location	chr4:16156273-16156274
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:16151157..16153804-chr4:16155728..16157326,2	K562	blood:
2	chr4:16150924..16154971-chr4:16155826..16158678,3	K562	blood:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10006159	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs10019399	0.85[YRI][hapmap]
rs1025897	0.95[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.81[MKK][hapmap]
rs1046234	0.85[YRI][hapmap]
rs11730977	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13133263	0.95[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap]
rs13634	0.93[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.92[TSI][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1618243	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1662654	0.85[YRI][hapmap]
rs16893162	0.80[MKK][hapmap];0.90[YRI][hapmap]
rs1712492	0.93[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.92[TSI][hapmap];0.90[YRI][hapmap];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1712495	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs178450	0.85[YRI][hapmap]
rs192898	0.89[ASN][1000 genomes]
rs203434	0.92[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap];0.85[YRI][hapmap]
rs203435	0.88[JPT][hapmap]
rs317853	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs317854	0.85[YRI][hapmap]
rs317856	0.85[ASN][1000 genomes]
rs317857	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs317862	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs317869	0.85[YRI][hapmap]
rs317870	0.85[YRI][hapmap]
rs317872	0.85[YRI][hapmap]
rs317873	0.93[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.92[TSI][hapmap];0.90[YRI][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs317875	0.85[YRI][hapmap]
rs317876	0.85[YRI][hapmap]
rs317877	0.84[YRI][hapmap]
rs317878	0.80[YRI][hapmap]
rs317908	0.92[ASN][1000 genomes]
rs317909	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs36012247	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6812660	0.81[ASW][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.82[MKK][hapmap];0.90[YRI][hapmap]
rs7666361	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs961449	0.95[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.85[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	nsv998299	chr4:16031459-16226466	Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv1004821	chr4:16055996-16830629	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv537046	chr4:16055996-16830629	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:16150200-16160800	Weak transcription	Primary B cells from cord blood	blood
2	chr4:16150800-16166600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr4:16151600-16158000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:16152000-16161600	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr4:16152000-16163800	Weak transcription	Thymus	Thymus
6	chr4:16152800-16159800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr4:16153000-16163600	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr4:16153000-16164400	Weak transcription	NH-A	brain
9	chr4:16153200-16165200	Weak transcription	HSMM	muscle
10	chr4:16153400-16157200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr4:16153600-16165600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr4:16154000-16159600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr4:16154400-16161600	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr4:16154400-16163000	Weak transcription	Primary T cells from cord blood	blood
15	chr4:16154800-16161800	Weak transcription	Brain Hippocampus Middle	brain
16	chr4:16154800-16164400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:16155600-16157800	Enhancers	Fetal Muscle Leg	muscle
18	chr4:16156000-16159200	Weak transcription	Lung	lung
19	chr4:16156000-16163200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr4:16156200-16157400	Weak transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links