Variant report

Variant	rs6465089
Chromosome Location	chr7:86564795-86564796
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:86564536..86566282-chr7:86780477..86783147,2	K562	blood:
2	chr7:86558868..86561676-chr7:86564507..86566575,2	K562	blood:
3	chr7:86563713..86566581-chr7:86790180..86792610,2	K562	blood:
4	chr7:86559085..86561840-chr7:86563741..86565276,2	MCF-7	breast:
5	chr7:86535291..86538056-chr7:86562816..86564931,2	K562	blood:
6	chr7:86563507..86566282-chr7:86780477..86783122,2	K562	blood:

Variant related genes	Relation type
ENSG00000135164	Chromatin interaction
ENSG00000224046	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10215436	0.95[AFR][1000 genomes]
rs10224033	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10226672	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10245069	1.00[ASN][1000 genomes]
rs10258008	0.92[YRI][hapmap];0.92[AFR][1000 genomes]
rs10259486	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1029367	0.93[AFR][1000 genomes]
rs10952891	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11772755	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12111888	0.92[AFR][1000 genomes]
rs12113681	0.95[AFR][1000 genomes]
rs16888204	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17161024	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17161098	0.93[YRI][hapmap];0.92[AFR][1000 genomes]
rs17161223	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17697878	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs17697894	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs17765493	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs1999945	0.85[CEU][hapmap]
rs1999946	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs1999947	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs2190299	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs28362761	0.95[AFR][1000 genomes]
rs28405414	0.92[AFR][1000 genomes]
rs28410495	0.93[AFR][1000 genomes]
rs28490267	0.93[AFR][1000 genomes]
rs28635668	0.91[AFR][1000 genomes]
rs35895874	0.92[AFR][1000 genomes]
rs55776729	1.00[ASN][1000 genomes]
rs57384334	1.00[ASN][1000 genomes]
rs61082072	0.88[AFR][1000 genomes]
rs6465086	1.00[ASN][1000 genomes]
rs6465087	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6947778	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6950123	1.00[ASN][1000 genomes]
rs6954573	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6955452	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6955565	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6955917	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6957842	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6958245	1.00[ASN][1000 genomes]
rs6958716	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6960053	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6967992	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6972489	0.93[YRI][hapmap];0.92[AFR][1000 genomes]
rs6974073	1.00[ASN][1000 genomes]
rs6974507	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6977048	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6978155	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73382326	1.00[ASN][1000 genomes]
rs73382367	0.97[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73382375	0.92[AFR][1000 genomes]
rs73382388	0.93[AFR][1000 genomes]
rs73398484	1.00[ASN][1000 genomes]
rs7781922	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7783745	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs7800616	1.00[ASN][1000 genomes]
rs7801050	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7801589	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7804469	1.00[ASN][1000 genomes]
rs7812155	1.00[ASN][1000 genomes]
rs9655947	1.00[CHB][hapmap];1.00[ASN][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	nsv1025032	chr7:86032479-86642973	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
4	nsv532147	chr7:86299225-87121975	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv1015870	chr7:86490491-86802320	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
6	nsv539000	chr7:86490491-86802320	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases
7	nsv527889	chr7:86496042-86832603	Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86498400-86576200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr7:86508000-86566800	Weak transcription	Brain Anterior Caudate	brain
3	chr7:86518000-86568800	Weak transcription	Psoas Muscle	Psoas
4	chr7:86518000-86577000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr7:86521000-86576400	Weak transcription	Hela-S3	cervix
6	chr7:86527000-86577000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr7:86527200-86575800	Weak transcription	Left Ventricle	heart
8	chr7:86530400-86568400	Weak transcription	Brain Hippocampus Middle	brain
9	chr7:86531200-86568800	Weak transcription	Brain Angular Gyrus	brain
10	chr7:86539200-86578800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr7:86539600-86568000	Weak transcription	Fetal Brain Male	brain
12	chr7:86540800-86567400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr7:86541600-86568800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr7:86543200-86568800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr7:86543400-86571400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr7:86543600-86566600	Weak transcription	Adipose Nuclei	Adipose
17	chr7:86551000-86576200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr7:86554800-86568800	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr7:86555000-86566600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr7:86555000-86577000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr7:86556000-86565800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr7:86561000-86568800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr7:86561200-86565800	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr7:86561400-86565800	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr7:86561400-86565800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr7:86561400-86566000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr7:86561400-86566800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr7:86561600-86568800	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr7:86561800-86578600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr7:86562000-86566600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr7:86562200-86572800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:86562800-86566600	Weak transcription	NHDF-Ad	bronchial
33	chr7:86563000-86565600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr7:86563000-86566800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr7:86563000-86578200	Weak transcription	HUVEC	blood vessel
36	chr7:86563200-86565800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr7:86563200-86568800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr7:86563200-86568800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr7:86564200-86565600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr7:86564200-86565600	Weak transcription	K562	blood
41	chr7:86564400-86566000	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr7:86564400-86572400	Weak transcription	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links