Variant report

Variant	rs7071603
Chromosome Location	chr10:52272007-52272008
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: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	chr10:52271610..52273554-chr10:52274092..52276247,2	MCF-7	breast:
2	chr10:52264059..52268097-chr10:52270623..52273217,5	K562	blood:
3	chr10:52269936..52272256-chr10:52382493..52385087,2	K562	blood:
4	chr10:52269833..52272327-chr17:57922968..57924991,2	MCF-7	breast:
5	chr10:52226422..52229059-chr10:52270774..52272977,2	MCF-7	breast:
6	chr10:52228792..52231696-chr10:52270677..52273544,2	MCF-7	breast:
7	chr10:52266589..52268433-chr10:52270760..52273217,2	K562	blood:
8	chr10:52271127..52273442-chr10:52273762..52275494,2	MCF-7	breast:
9	chr10:52270406..52272134-chr10:52383190..52385658,2	MCF-7	breast:
10	chr10:52270150..52272703-chr10:52318825..52321110,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000226200	Chromatin interaction
ENSG00000201524	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1011881	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10740714	0.91[EUR][1000 genomes]
rs10763529	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10826100	0.91[JPT][hapmap]
rs10826118	0.88[CEU][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10826126	0.92[CEU][hapmap];0.87[JPT][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11005937	0.90[EUR][1000 genomes]
rs1203413	0.81[JPT][hapmap]
rs1203415	0.82[JPT][hapmap]
rs12356922	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1548256	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1569962	0.88[CEU][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes]
rs1569963	0.91[EUR][1000 genomes]
rs1810576	0.85[EUR][1000 genomes]
rs1916566	0.82[JPT][hapmap]
rs2092996	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2099527	0.82[JPT][hapmap]
rs2144862	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2339505	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2339506	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2842103	0.81[JPT][hapmap]
rs4312019	0.81[JPT][hapmap]
rs4935712	0.88[CEU][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4935727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4935730	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7075289	0.92[CEU][hapmap];0.87[JPT][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7904833	0.91[JPT][hapmap]
rs978588	0.89[CEU][hapmap];0.87[JPT][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 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	nsv895391	chr10:52260398-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv895392	chr10:52263910-52291608	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv467193	chr10:52265265-52289664	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	nsv550855	chr10:52265265-52289664	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52262200-52287200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr10:52262400-52272600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr10:52262800-52273000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr10:52265000-52272400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
5	chr10:52265400-52273200	Enhancers	Brain Angular Gyrus	brain
6	chr10:52266200-52272800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr10:52266400-52272800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr10:52266400-52272800	Enhancers	HepG2	liver
9	chr10:52266800-52282400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr10:52267000-52272400	Weak transcription	Thymus	Thymus
11	chr10:52267000-52273400	Enhancers	Brain Substantia Nigra	brain
12	chr10:52267000-52282400	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:52267400-52273600	Enhancers	Brain Hippocampus Middle	brain
14	chr10:52267600-52272400	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr10:52267600-52273000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr10:52267600-52273000	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr10:52267600-52277800	Enhancers	Brain Anterior Caudate	brain
18	chr10:52268000-52273200	Enhancers	Stomach Mucosa	stomach
19	chr10:52268200-52282400	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr10:52268200-52282600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr10:52268400-52282200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr10:52268800-52272200	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr10:52268800-52278800	Weak transcription	Primary B cells from cord blood	blood
24	chr10:52269200-52273000	Enhancers	Pancreatic Islets	Pancreatic Islet
25	chr10:52269400-52272200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr10:52270000-52282400	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr10:52270000-52282800	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr10:52270200-52282600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr10:52270400-52273000	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr10:52270600-52272200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr10:52270600-52272200	Enhancers	Primary T killer memory cells from peripheral blood	blood
32	chr10:52270600-52272800	Enhancers	Primary T cells from cord blood	blood
33	chr10:52270800-52272400	Enhancers	Fetal Heart	heart
34	chr10:52270800-52272600	Enhancers	K562	blood
35	chr10:52270800-52272800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr10:52270800-52272800	Enhancers	Fetal Intestine Small	intestine
37	chr10:52270800-52272800	Enhancers	Right Atrium	heart
38	chr10:52270800-52272800	Enhancers	HSMMtube	muscle
39	chr10:52270800-52273000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
40	chr10:52270800-52273200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr10:52270800-52273200	Enhancers	Right Ventricle	heart
42	chr10:52270800-52273400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
43	chr10:52270800-52273400	Enhancers	Brain Inferior Temporal Lobe	brain
44	chr10:52270800-52273400	Flanking Active TSS	GM12878-XiMat	blood
45	chr10:52271000-52272600	Enhancers	NHEK	skin
46	chr10:52271000-52272800	Enhancers	Primary T cells fromperipheralblood	blood
47	chr10:52271000-52272800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr10:52271000-52273200	Enhancers	Pancreas	Pancrea
49	chr10:52271000-52273400	Enhancers	Left Ventricle	heart
50	chr10:52271000-52273400	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links