Variant report

Variant	rs10173742
Chromosome Location	chr2:87010603-87010604
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:87006827..87008386-chr2:87009565..87012245,2	K562	blood:
2	chr2:87009642..87012504-chr2:87015685..87018446,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153563	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1051386	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2944250	0.86[ASN][1000 genomes]
rs2944251	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2944254	0.95[ASN][1000 genomes]
rs3020726	0.83[EUR][1000 genomes]
rs3020728	0.86[EUR][1000 genomes]
rs3020729	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7596329	0.84[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	nsv532724	chr2:86622295-87086407	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv10063	chr2:86940988-87084360	Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1002420	chr2:86948835-87172715	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv874472	chr2:86961252-87071474	Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv1008817	chr2:86970406-87172715	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	esv14382	chr2:86972214-87174121	Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv997982	chr2:86972834-87105864	Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1007746	chr2:86972834-87172715	Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
9	nsv458585	chr2:86974318-87108211	Flanking Active TSS Genic enhancers Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
10	nsv582373	chr2:86974318-87108211	Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
11	nsv1007307	chr2:86974563-87055214	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
12	nsv535809	chr2:86974563-87055214	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
13	nsv1003748	chr2:86975514-87032318	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
14	nsv535810	chr2:86975514-87032318	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
15	nsv1004572	chr2:86975514-87082883	Bivalent/Poised TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
16	nsv535811	chr2:86975514-87082883	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:87001400-87014800	Weak transcription	Brain Substantia Nigra	brain
2	chr2:87002000-87012600	Weak transcription	Placenta	Placenta
3	chr2:87002200-87014800	Weak transcription	Brain Hippocampus Middle	brain
4	chr2:87002600-87011000	Weak transcription	Colonic Mucosa	Colon
5	chr2:87002800-87015200	Weak transcription	Brain Angular Gyrus	brain
6	chr2:87003200-87011000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr2:87003800-87010800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr2:87003800-87015000	Weak transcription	Brain Anterior Caudate	brain
9	chr2:87003800-87016000	Weak transcription	Pancreas	Pancrea
10	chr2:87004000-87011000	Weak transcription	Esophagus	oesophagus
11	chr2:87004000-87011000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr2:87004400-87010800	Weak transcription	Gastric	stomach
13	chr2:87004400-87010800	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr2:87004400-87015000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr2:87004600-87010800	Weak transcription	Primary B cells from cord blood	blood
16	chr2:87004600-87011000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr2:87004600-87014800	Weak transcription	Aorta	Aorta
18	chr2:87004800-87016400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr2:87005400-87010800	Weak transcription	Thymus	Thymus
20	chr2:87006200-87010800	Weak transcription	Right Atrium	heart
21	chr2:87007600-87010800	Weak transcription	Fetal Lung	lung
22	chr2:87008400-87011200	Enhancers	Spleen	Spleen
23	chr2:87008400-87011600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr2:87009000-87010800	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr2:87009400-87015400	Weak transcription	Left Ventricle	heart
26	chr2:87010000-87011000	Enhancers	Primary T cells fromperipheralblood	blood
27	chr2:87010200-87013000	Genic enhancers	Fetal Thymus	thymus
28	chr2:87010400-87011400	Enhancers	GM12878-XiMat	blood
29	chr2:87010400-87012200	Enhancers	Primary B cells from peripheral blood	blood
30	chr2:87010600-87011200	Enhancers	Primary T cells from cord blood	blood
31	chr2:87010600-87011200	Enhancers	Monocytes-CD14+_RO01746	blood
32	chr2:87010600-87011600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
33	chr2:87010600-87011800	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr2:87010600-87013000	Enhancers	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links