Variant report

Variant	rs7807853
Chromosome Location	chr7:104597669-104597670
allele	A/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:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:104593671..104595578-chr7:104597334..104600317,2	K562	blood:
2	chr7:104596381..104598506-chr7:104603345..104606110,2	K562	blood:
3	chr7:104590688..104592595-chr7:104595872..104597993,2	K562	blood:
4	chr7:104584116..104586907-chr7:104596307..104599294,2	K562	blood:
5	chr7:104593109..104594815-chr7:104596392..104598019,2	MCF-7	breast:
6	chr7:104597662..104599339-chr7:104600006..104602657,2	K562	blood:
7	chr7:104595365..104601201-chr7:104602410..104607281,8	K562	blood:

No data

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10274325	0.80[ASN][1000 genomes]
rs11978074	0.80[ASN][1000 genomes]
rs13237211	1.00[ASN][1000 genomes]
rs17777642	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2192932	0.80[TSI][hapmap]
rs2252074	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2428161	0.89[ASW][hapmap];0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2428162	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2470951	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6466030	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6466031	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6466033	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6466034	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6965384	0.81[CEU][hapmap]
rs740068	0.86[JPT][hapmap]
rs7776707	0.81[CEU][hapmap];0.87[TSI][hapmap]
rs7795893	1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs886145	0.95[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029283	chr7:104571741-104729168	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	132 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7807853	RELN	cis	cerebellum	SCAN

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104584600-104619000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:104587200-104599000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr7:104587200-104600800	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr7:104587200-104623600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr7:104591600-104604600	Weak transcription	Fetal Kidney	kidney
6	chr7:104593600-104597800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr7:104594800-104598400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr7:104595600-104599400	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr7:104595600-104599400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr7:104595600-104599400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr7:104595600-104599400	Enhancers	Stomach Mucosa	stomach
12	chr7:104595600-104599400	Enhancers	NHDF-Ad	bronchial
13	chr7:104595600-104605600	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr7:104595800-104598200	Genic enhancers	Primary B cells from peripheral blood	blood
15	chr7:104595800-104598200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr7:104595800-104599400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr7:104595800-104599400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr7:104595800-104601200	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr7:104596000-104597800	Weak transcription	K562	blood
20	chr7:104596200-104598000	Weak transcription	Lung	lung
21	chr7:104596200-104599400	Enhancers	Primary hematopoietic stem cells	blood
22	chr7:104596200-104599400	Enhancers	Colon Smooth Muscle	Colon
23	chr7:104596200-104601200	Weak transcription	Adipose Nuclei	Adipose
24	chr7:104596400-104598200	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr7:104596400-104599400	Enhancers	NHLF	lung
26	chr7:104596400-104599600	Enhancers	Fetal Intestine Small	intestine
27	chr7:104596600-104598000	Weak transcription	Colonic Mucosa	Colon
28	chr7:104596600-104598200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
29	chr7:104596600-104599400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr7:104596800-104598000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr7:104596800-104598000	Flanking Active TSS	GM12878-XiMat	blood
32	chr7:104596800-104598200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr7:104596800-104598200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr7:104596800-104598200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr7:104596800-104598200	Enhancers	Small Intestine	intestine
36	chr7:104596800-104598200	Enhancers	HMEC	breast
37	chr7:104596800-104598400	Enhancers	Rectal Smooth Muscle	rectum
38	chr7:104596800-104598400	Enhancers	HSMM	muscle
39	chr7:104596800-104599400	Enhancers	Muscle Satellite Cultured Cells	--
40	chr7:104596800-104599400	Enhancers	Stomach Smooth Muscle	stomach
41	chr7:104596800-104599400	Enhancers	Osteobl	bone
42	chr7:104597000-104597800	Enhancers	Primary B cells from cord blood	blood
43	chr7:104597000-104597800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr7:104597000-104598000	Enhancers	Primary T helper naive cells from peripheral blood	blood
45	chr7:104597000-104598000	Enhancers	Primary T killer memory cells from peripheral blood	blood
46	chr7:104597000-104598200	Enhancers	Primary T cells fromperipheralblood	blood
47	chr7:104597000-104598200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
48	chr7:104597000-104598200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
49	chr7:104597000-104599400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr7:104597000-104599400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links