Variant report

Variant	rs10896601
Chromosome Location	chr11:57075392-57075393
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:57075235-57076087	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr11:57075290-57075891	K562	blood:	n/a	n/a
3	POLR2A	chr11:57074802-57079229	A549	lung:	n/a	n/a
4	POLR2A	chr11:57075206-57079517	U87	brain:	n/a	n/a
5	POLR2A	chr11:57075206-57079814	U87	brain:	n/a	n/a
6	POLR2A	chr11:57074707-57075667	PFSK-1	brain:	n/a	n/a
7	POLR2A	chr11:57075368-57075399	Hela-S3	cervix:	n/a	n/a
8	POLR2A	chr11:57075238-57075595	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:57074196..57077122-chr11:57088845..57090376,2	K562	blood:
2	chr11:57074141..57076695-chr11:57081529..57084399,2	K562	blood:
3	chr11:57069900..57073117-chr11:57073296..57075998,3	MCF-7	breast:
4	chr11:57072533..57077787-chr11:57091126..57096114,6	MCF-7	breast:
5	chr11:57073611..57077332-chr11:57101938..57105218,4	K562	blood:
6	chr11:57074289..57076422-chr11:57076530..57079062,4	MCF-7	breast:

No data

Variant related genes	Relation type
TNKS1BP1	TF binding region
ENSG00000149136	Chromatin interaction
ENSG00000149115	Chromatin interaction
ENSG00000254662	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10732882	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs10792083	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs10792085	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10896596	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10896599	0.87[EUR][1000 genomes]
rs10896602	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10896609	0.82[ASN][1000 genomes]
rs11228971	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11228988	0.90[ASN][1000 genomes]
rs11602501	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11604373	0.89[ASN][1000 genomes]
rs17573746	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1939496	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2511029	0.82[EUR][1000 genomes]
rs2846051	0.83[EUR][1000 genomes]
rs3935069	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4939129	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4939131	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4939134	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs5012051	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs522656	0.80[EUR][1000 genomes]
rs55637147	0.83[ASN][1000 genomes]
rs590240	0.81[EUR][1000 genomes]
rs7130020	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7928905	0.89[ASN][1000 genomes]
rs7931298	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7936545	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7943761	0.90[ASN][1000 genomes]
rs7943915	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7948723	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1044030	chr11:57073395-58035564	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	nsv541047	chr11:57073395-58035564	Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	136 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57052400-57078200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:57067200-57078400	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr11:57067400-57078400	Weak transcription	Primary B cells from peripheral blood	blood
4	chr11:57067400-57079000	Weak transcription	Primary B cells from cord blood	blood
5	chr11:57067600-57078400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr11:57067800-57078000	Weak transcription	Fetal Heart	heart
7	chr11:57067800-57078400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr11:57068400-57078400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr11:57068400-57081600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr11:57068800-57078200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr11:57068800-57078200	Weak transcription	Fetal Brain Male	brain
12	chr11:57069200-57076400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr11:57069600-57076800	Weak transcription	Brain Substantia Nigra	brain
14	chr11:57069600-57078400	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr11:57069800-57076400	Weak transcription	Fetal Thymus	thymus
16	chr11:57069800-57078200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr11:57069800-57078600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr11:57069800-57078600	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr11:57070000-57078200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr11:57070000-57078400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr11:57070000-57078600	Weak transcription	Primary T cells from cord blood	blood
22	chr11:57070200-57078200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr11:57070200-57078400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:57070200-57078600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr11:57070400-57076200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr11:57070600-57078000	Genic enhancers	HMEC	breast
27	chr11:57070800-57075400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr11:57070800-57076000	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr11:57070800-57077600	Weak transcription	Thymus	Thymus
30	chr11:57071000-57075400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr11:57071000-57076200	Weak transcription	Brain Hippocampus Middle	brain
32	chr11:57071000-57077400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:57071000-57078000	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr11:57071200-57075400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr11:57071200-57075800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr11:57071200-57076600	Weak transcription	Rectal Smooth Muscle	rectum
37	chr11:57071200-57076600	Enhancers	HepG2	liver
38	chr11:57071400-57077800	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr11:57071400-57078000	Genic enhancers	Fetal Muscle Leg	muscle
40	chr11:57071600-57076800	Weak transcription	Dnd41	blood
41	chr11:57071800-57077800	Enhancers	Psoas Muscle	Psoas
42	chr11:57072000-57078200	Strong transcription	Fetal Brain Female	brain
43	chr11:57072200-57078200	Genic enhancers	Stomach Smooth Muscle	stomach
44	chr11:57072400-57078200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr11:57072800-57076600	Strong transcription	Fetal Stomach	stomach
46	chr11:57072800-57076600	Weak transcription	K562	blood
47	chr11:57072800-57077600	Strong transcription	Osteobl	bone
48	chr11:57072800-57078200	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr11:57073000-57078000	Genic enhancers	NH-A	brain
50	chr11:57073200-57075400	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links