Variant report

Variant	rs17016395
Chromosome Location	chr4:143493481-143493482
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:143493193..143494838-chr4:143533347..143535926,2	MCF-7	breast:
2	chr4:143391847..143398603-chr4:143487301..143496810,15	MCF-7	breast:
3	chr4:143391421..143397876-chr4:143484529..143495051,12	MCF-7	breast:
4	chr4:143490059..143492004-chr4:143493158..143496026,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109452	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10002299	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10008407	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10008556	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10008852	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10010772	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10014555	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10014747	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10014849	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10014859	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10017037	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10021085	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12331694	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1425529	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1425530	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs17016424	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016428	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016465	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016469	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs17016476	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2113995	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2162106	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2162107	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28413753	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28481559	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28562975	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28612359	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28620580	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28647363	0.87[ASN][1000 genomes]
rs28693572	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28701753	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28713525	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28758948	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28846169	0.87[ASN][1000 genomes]
rs3909597	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3909598	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4340863	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4361463	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4560493	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4560494	1.00[AMR][1000 genomes]
rs4563566	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4579200	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs56258617	0.87[ASN][1000 genomes]
rs61289420	0.87[ASN][1000 genomes]
rs6835316	0.86[ASN][1000 genomes]

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	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	nsv461660	chr4:143437219-143538179	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv595605	chr4:143437219-143538179	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr4:143489600-143505600	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr4:143489800-143500400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr4:143489800-143519400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr4:143490000-143496400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr4:143490200-143496200	Enhancers	Primary T helper cells fromperipheralblood	blood
6	chr4:143490600-143504600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr4:143490800-143519200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr4:143491000-143493600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr4:143491000-143496200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr4:143491400-143494000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr4:143491800-143493600	Enhancers	Primary T helper naive cells from peripheral blood	blood
12	chr4:143492000-143493600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
13	chr4:143492200-143494600	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr4:143492400-143506200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr4:143493000-143493800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
16	chr4:143493200-143493600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
17	chr4:143493200-143493600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr4:143493200-143493800	Enhancers	Fetal Heart	heart
19	chr4:143493400-143493600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr4:143493400-143493600	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links