Variant report

Variant	rs28420315
Chromosome Location	chr4:143143170-143143171
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10001631	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10003428	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1219271	0.86[EUR][1000 genomes]
rs1219273	0.86[EUR][1000 genomes]
rs1219274	0.86[EUR][1000 genomes]
rs17015623	0.91[EUR][1000 genomes]
rs17015729	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17015754	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015774	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015778	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17015779	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17705389	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2322544	0.83[EUR][1000 genomes]
rs2322546	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2322547	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2322548	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2627810	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2636646	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28448773	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28529144	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28533923	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28584886	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28611471	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28647625	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28672226	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28690972	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28705116	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs336388	0.86[EUR][1000 genomes]
rs4629539	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6818542	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6818735	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6835967	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6844709	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6846839	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6847049	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72722471	0.85[ASN][1000 genomes]
rs7672615	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7691738	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498005	chr4:142515689-143502988	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1027781	chr4:142943485-143306567	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv830098	chr4:143050143-143234384	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv595604	chr4:143077401-143228914	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv830099	chr4:143138257-143285055	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:143058000-143181000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr4:143095000-143154200	Weak transcription	Left Ventricle	heart
3	chr4:143114600-143150600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr4:143122600-143143600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr4:143128800-143157200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr4:143128800-143158600	Weak transcription	NHDF-Ad	bronchial
7	chr4:143129000-143153400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr4:143129000-143155200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr4:143129000-143157200	Weak transcription	Dnd41	blood
10	chr4:143129200-143147400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr4:143129200-143152200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr4:143129200-143155400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:143129200-143157200	Weak transcription	NHEK	skin
14	chr4:143129200-143169600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr4:143130200-143157200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr4:143131600-143152200	Weak transcription	HSMM	muscle
17	chr4:143133600-143157200	Weak transcription	HMEC	breast
18	chr4:143133800-143146200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr4:143134800-143144000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr4:143135000-143150600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr4:143135400-143184200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr4:143135600-143143800	Weak transcription	Primary T cells fromperipheralblood	blood
23	chr4:143135800-143144000	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr4:143135800-143146000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:143137600-143143600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr4:143137800-143143200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr4:143139000-143147200	Weak transcription	Primary T cells from cord blood	blood
28	chr4:143139400-143157200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr4:143139400-143159600	Weak transcription	HSMMtube	muscle
30	chr4:143139600-143143600	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr4:143141200-143144000	Weak transcription	Fetal Heart	heart
32	chr4:143141600-143148600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr4:143142000-143143400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr4:143142000-143144800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr4:143142200-143159800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links