Variant report

Variant	rs1885796
Chromosome Location	chr10:112612471-112612472
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:112612328..112615188-chr10:112618146..112620341,2	MCF-7	breast:
2	chr10:112606555..112610300-chr10:112611947..112614972,3	MCF-7	breast:
3	chr10:112591605..112593226-chr10:112610703..112612547,2	MCF-7	breast:
4	chr10:112608440..112622028-chr10:112627331..112635995,26	MCF-7	breast:
5	chr10:112602080..112604237-chr10:112611419..112615912,4	K562	blood:
6	chr10:112610748..112613703-chr10:112623981..112626805,2	MCF-7	breast:
7	chr10:112612441..112615038-chr10:112661869..112664836,2	K562	blood:
8	chr10:112604056..112607553-chr10:112607737..112614942,9	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000203497	Chromatin interaction
ENSG00000214413	Chromatin interaction
ENSG00000232470	Chromatin interaction
ENSG00000150593	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs11195368	1.00[GIH][hapmap];0.86[TSI][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195373	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195376	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11195409	0.83[EUR][1000 genomes]
rs11592186	0.94[EUR][1000 genomes]
rs11592376	1.00[CEU][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593462	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593479	0.94[EUR][1000 genomes]
rs11593592	1.00[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11593866	0.84[EUR][1000 genomes]
rs11597120	0.94[EUR][1000 genomes]
rs11597460	0.94[EUR][1000 genomes]
rs11597928	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11598889	1.00[CEU][hapmap]
rs11812232	0.83[EUR][1000 genomes]
rs11812855	0.94[EUR][1000 genomes]
rs11813262	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11813593	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11814418	1.00[GIH][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs11814686	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816033	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11816247	0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs11816269	1.00[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs11816396	0.94[EUR][1000 genomes]
rs11818060	0.94[EUR][1000 genomes]
rs11818747	0.94[EUR][1000 genomes]
rs11818761	0.94[EUR][1000 genomes]
rs11818771	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11818869	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12781566	1.00[ASN][1000 genomes]
rs1322997	1.00[CEU][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs1327556	0.94[EUR][1000 genomes]
rs1535559	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128189	0.94[EUR][1000 genomes]
rs34104444	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55647014	0.89[EUR][1000 genomes]
rs55858908	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56237211	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60633872	0.94[EUR][1000 genomes]
rs60681723	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60877808	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61469604	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585018	1.00[CEU][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs6585020	0.86[TSI][hapmap];0.89[EUR][1000 genomes]
rs7081726	1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs74156303	1.00[ASN][1000 genomes]
rs74156304	0.89[EUR][1000 genomes]
rs74156305	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156307	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156308	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156309	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156310	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156311	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74156320	0.94[EUR][1000 genomes]
rs74156323	0.94[EUR][1000 genomes]
rs7923004	1.00[TSI][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045608	chr10:112524813-112677557	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1041758	chr10:112552897-112677557	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv467455	chr10:112579299-112612471	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv552172	chr10:112579299-112612471	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv896003	chr10:112579299-112631211	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv896002	chr10:112579299-112638028	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1051566	chr10:112580049-112730573	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112597000-112617200	Weak transcription	Psoas Muscle	Psoas
2	chr10:112597400-112614600	Weak transcription	Aorta	Aorta
3	chr10:112597800-112613400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr10:112597800-112617200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr10:112599600-112613000	Enhancers	Pancreas	Pancrea
6	chr10:112600600-112617200	Weak transcription	Right Ventricle	heart
7	chr10:112600800-112613000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr10:112602400-112620600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr10:112605600-112617000	Weak transcription	Fetal Heart	heart
10	chr10:112607600-112617000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr10:112608200-112616000	Enhancers	Primary T cells fromperipheralblood	blood
12	chr10:112608800-112616000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr10:112608800-112616000	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr10:112609000-112615000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr10:112609000-112616000	Enhancers	Primary T killer memory cells from peripheral blood	blood
16	chr10:112609200-112615400	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr10:112609200-112616000	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr10:112609200-112616000	Enhancers	Placenta	Placenta
19	chr10:112609400-112613000	Enhancers	Fetal Thymus	thymus
20	chr10:112609400-112613800	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr10:112609400-112613800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:112609800-112615800	Enhancers	Primary monocytes fromperipheralblood	blood
23	chr10:112610000-112613800	Enhancers	HMEC	breast
24	chr10:112610000-112614400	Enhancers	Primary B cells from cord blood	blood
25	chr10:112610400-112613000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:112610600-112613600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr10:112610600-112616000	Enhancers	Fetal Intestine Small	intestine
28	chr10:112610800-112612800	Enhancers	Fetal Muscle Leg	muscle
29	chr10:112610800-112612800	Enhancers	NHDF-Ad	bronchial
30	chr10:112610800-112613200	Enhancers	Stomach Mucosa	stomach
31	chr10:112610800-112613800	Enhancers	Rectal Mucosa Donor 31	rectum
32	chr10:112611000-112612600	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr10:112611000-112613000	Enhancers	Sigmoid Colon	Sigmoid Colon
34	chr10:112611000-112613800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr10:112611000-112614400	Enhancers	Fetal Intestine Large	intestine
36	chr10:112611000-112615800	Enhancers	Primary T cells from cord blood	blood
37	chr10:112611200-112612600	Enhancers	Primary hematopoietic stem cells short term culture	blood
38	chr10:112611200-112612600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr10:112611200-112613800	Weak transcription	Fetal Lung	lung
40	chr10:112611200-112616000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
41	chr10:112611200-112616000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr10:112611200-112617200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr10:112611200-112619600	Weak transcription	Osteobl	bone
44	chr10:112611200-112630600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr10:112611400-112612600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr10:112611400-112613000	Weak transcription	Primary hematopoietic stem cells	blood
47	chr10:112611400-112613600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr10:112611400-112613600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:112611400-112617000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr10:112611400-112617000	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links