Variant report

Variant	rs7097359
Chromosome Location	chr10:52363203-52363204
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:52361423..52364078-chr10:52378639..52381362,2	K562	blood:
2	chr10:52356810..52366659-chr10:52378806..52385975,25	MCF-7	breast:
3	chr10:52358660..52367648-chr10:52378481..52386533,25	MCF-7	breast:
4	chr10:52342671..52345197-chr10:52362617..52364673,2	MCF-7	breast:
5	chr10:52342059..52344112-chr10:52362150..52364434,3	K562	blood:
6	chr10:52362637..52365036-chr10:52365893..52368621,2	K562	blood:
7	chr10:52361922..52364870-chr10:52374462..52376104,2	MCF-7	breast:
8	chr10:52361957..52364109-chr10:52372914..52375707,2	K562	blood:
9	chr10:52352956..52355914-chr10:52362254..52364953,3	K562	blood:
10	chr10:52352876..52355415-chr10:52360770..52364645,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000230036	Chromatin interaction
ENSG00000226200	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10740762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10763590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10826242	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006259	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12358866	0.82[YRI][hapmap]
rs3001879	0.91[EUR][1000 genomes]
rs3001883	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs3001885	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3011714	0.91[EUR][1000 genomes]
rs4268459	0.94[EUR][1000 genomes]
rs4935734	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4935735	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4935736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4935739	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6481442	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6481461	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7067552	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs7073182	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs7089882	0.95[CEU][hapmap];0.92[EUR][1000 genomes]
rs7090996	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7094655	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7903649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7904101	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7908136	0.95[EUR][1000 genomes]
rs7909486	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs7918559	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	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7097359	FLJ31958	N/A	lymphoblastoid	RTeQTL

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52338000-52363800	Weak transcription	Fetal Kidney	kidney
2	chr10:52338000-52367000	Weak transcription	Aorta	Aorta
3	chr10:52341200-52373000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:52346600-52363400	Weak transcription	Adipose Nuclei	Adipose
5	chr10:52346600-52363800	Weak transcription	Spleen	Spleen
6	chr10:52348000-52363400	Weak transcription	Primary hematopoietic stem cells	blood
7	chr10:52349600-52363600	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr10:52349600-52364000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr10:52349600-52364800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr10:52349800-52363800	Weak transcription	Primary B cells from cord blood	blood
11	chr10:52356600-52363800	Weak transcription	Fetal Brain Female	brain
12	chr10:52356800-52363400	Weak transcription	Colon Smooth Muscle	Colon
13	chr10:52358400-52367000	Enhancers	Fetal Lung	lung
14	chr10:52358800-52367800	Enhancers	Brain Hippocampus Middle	brain
15	chr10:52359400-52369200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr10:52359600-52363600	Enhancers	A549	lung
17	chr10:52359600-52363800	Enhancers	NHDF-Ad	bronchial
18	chr10:52359800-52363800	Enhancers	NHEK	skin
19	chr10:52360000-52366200	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr10:52360200-52375600	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr10:52360400-52366000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr10:52360600-52363800	Weak transcription	Fetal Muscle Leg	muscle
23	chr10:52360600-52364000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr10:52360800-52363800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr10:52360800-52363800	Weak transcription	Gastric	stomach
26	chr10:52361000-52363400	Weak transcription	NH-A	brain
27	chr10:52361000-52364600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr10:52361200-52363400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr10:52361200-52363400	Weak transcription	HUVEC	blood vessel
30	chr10:52361200-52364800	Enhancers	Liver	Liver
31	chr10:52361400-52363400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr10:52361400-52363800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr10:52361400-52364000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr10:52361600-52363400	Enhancers	Pancreatic Islets	Pancreatic Islet
35	chr10:52361600-52364400	Enhancers	Pancreas	Pancrea
36	chr10:52361600-52369000	Enhancers	Brain Anterior Caudate	brain
37	chr10:52362000-52363400	Weak transcription	Primary T cells from cord blood	blood
38	chr10:52362000-52363400	Enhancers	Placenta Amnion	Placenta Amnion
39	chr10:52362000-52364400	Enhancers	Left Ventricle	heart
40	chr10:52362000-52365400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr10:52362000-52365400	Enhancers	Ovary	ovary
42	chr10:52362000-52368400	Enhancers	Brain Inferior Temporal Lobe	brain
43	chr10:52362000-52368400	Enhancers	Brain Substantia Nigra	brain
44	chr10:52362200-52363800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr10:52362200-52363800	Enhancers	iPS-15b Cell Line	embryonic stem cell
46	chr10:52362200-52364000	Enhancers	HSMMtube	muscle
47	chr10:52362200-52364600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr10:52362200-52367400	Enhancers	Brain Cingulate Gyrus	brain
49	chr10:52362200-52372400	Weak transcription	Esophagus	oesophagus
50	chr10:52362400-52367200	Enhancers	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links