Variant report

Variant	rs28715500
Chromosome Location	chr9:95787210-95787211
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	chr9:95762106..95765077-chr9:95786867..95789885,3	MCF-7	breast:
2	chr9:95786580..95788650-chr9:95793860..95795482,2	MCF-7	breast:
3	chr9:95787005..95788972-chr9:95815833..95817820,2	MCF-7	breast:
4	chr9:95786796..95788401-chr9:95794963..95797802,2	MCF-7	breast:
5	chr9:95775051..95776669-chr9:95785985..95787695,2	MCF-7	breast:
6	chr9:95786084..95787782-chr9:95793550..95796411,2	K562	blood:
7	chr9:95786380..95788403-chr9:95858223..95860085,2	MCF-7	breast:
8	chr9:95782537..95784143-chr9:95785904..95788136,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000165233	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10115178	0.85[ASN][1000 genomes]
rs10115813	0.85[ASN][1000 genomes]
rs10117910	0.85[ASN][1000 genomes]
rs10821056	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10821057	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992583	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10992585	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10992590	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992593	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13285835	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs13287304	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34002351	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34274030	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36044170	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56226047	0.90[ASN][1000 genomes]
rs7024692	0.85[ASN][1000 genomes]
rs7048701	0.88[ASN][1000 genomes]
rs7852416	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7855476	0.94[AFR][1000 genomes];0.98[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	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer 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	30 gene(s)	inside rSNPs	diseases
2	nsv1054767	chr9:95738134-95875977	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS 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	nsv1035230	chr9:95770249-95934982	Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv893575	chr9:95781040-95854013	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv521136	chr9:95782667-95798871	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95762600-95790200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:95763800-95789400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr9:95766600-95790400	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr9:95766600-95790800	Weak transcription	Right Ventricle	heart
5	chr9:95766600-95791000	Weak transcription	Colonic Mucosa	Colon
6	chr9:95766600-95791000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr9:95766600-95794000	Weak transcription	Brain Hippocampus Middle	brain
8	chr9:95770200-95793600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:95774800-95788400	Strong transcription	Thymus	Thymus
10	chr9:95776600-95799200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr9:95776600-95799400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:95779600-95788800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
13	chr9:95779600-95798400	Strong transcription	Brain Germinal Matrix	brain
14	chr9:95780800-95787800	Strong transcription	Primary hematopoietic stem cells	blood
15	chr9:95781200-95789400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
16	chr9:95781600-95788800	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr9:95781800-95789200	Strong transcription	Lung	lung
18	chr9:95781800-95789600	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr9:95781800-95790400	Genic enhancers	Primary T cells fromperipheralblood	blood
20	chr9:95782000-95789600	Genic enhancers	Primary T cells from cord blood	blood
21	chr9:95782200-95790000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr9:95783000-95793800	Weak transcription	Liver	Liver
23	chr9:95783400-95787600	Weak transcription	Fetal Stomach	stomach
24	chr9:95783600-95790800	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr9:95783600-95799000	Weak transcription	Esophagus	oesophagus
26	chr9:95784200-95795400	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr9:95785600-95790200	Weak transcription	GM12878-XiMat	blood
28	chr9:95785800-95787400	Genic enhancers	Primary neutrophils fromperipheralblood	blood
29	chr9:95785800-95791800	Weak transcription	Duodenum Mucosa	Duodenum
30	chr9:95785800-95792200	Weak transcription	Fetal Intestine Large	intestine
31	chr9:95786000-95788200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr9:95786000-95788600	Strong transcription	Primary B cells from peripheral blood	blood
33	chr9:95786000-95791600	Weak transcription	Pancreas	Pancrea
34	chr9:95786200-95788000	Enhancers	Fetal Muscle Trunk	muscle
35	chr9:95786400-95787600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr9:95786400-95787800	Strong transcription	Fetal Brain Female	brain
37	chr9:95786400-95788800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr9:95786400-95789600	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
39	chr9:95786400-95789800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
40	chr9:95786400-95790000	Genic enhancers	Primary monocytes fromperipheralblood	blood
41	chr9:95786400-95790000	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
42	chr9:95786600-95787400	Enhancers	Breast Myoepithelial Primary Cells	Breast
43	chr9:95786600-95787400	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
44	chr9:95786600-95788400	Strong transcription	Adipose Nuclei	Adipose
45	chr9:95786600-95789400	Genic enhancers	Dnd41	blood
46	chr9:95786600-95789800	Genic enhancers	Primary B cells from cord blood	blood
47	chr9:95786800-95788200	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
48	chr9:95787000-95787600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr9:95787000-95788000	Weak transcription	Stomach Smooth Muscle	stomach
50	chr9:95787000-95789000	Strong transcription	Spleen	Spleen

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