Variant report

Variant	rs610280
Chromosome Location	chr11:73362997-73362998
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:73362925-73363515	K562	blood:	n/a	n/a
2	MYBL2	chr11:73362974-73363891	HepG2	liver:	n/a	n/a
3	POLR2A	chr11:73362842-73363006	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:73360291..73363163-chr11:73370092..73372185,2	MCF-7	breast:

Variant related genes	Relation type
PLEKHB1	TF binding region
ENSG00000021300	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10047427	1.00[MEX][hapmap]
rs11235782	1.00[MEX][hapmap]
rs11235817	1.00[MEX][hapmap]
rs12281470	1.00[MEX][hapmap]
rs12282576	1.00[MEX][hapmap]
rs12293194	1.00[AMR][1000 genomes]
rs1621654	1.00[AMR][1000 genomes]
rs1670574	1.00[AMR][1000 genomes]
rs1723834	1.00[ASW][hapmap]
rs1723838	1.00[ASW][hapmap]
rs1723844	1.00[ASW][hapmap]
rs1723845	1.00[ASW][hapmap]
rs1723846	0.89[ASW][hapmap]
rs1723849	1.00[ASW][hapmap]
rs17310361	1.00[MEX][hapmap]
rs1880643	1.00[ASW][hapmap]
rs1976913	1.00[AMR][1000 genomes]
rs2008722	0.90[ASW][hapmap];1.00[MEX][hapmap];0.93[YRI][hapmap]
rs2511273	1.00[AMR][1000 genomes]
rs2511275	1.00[AMR][1000 genomes]
rs4551800	1.00[AMR][1000 genomes]
rs4944859	1.00[ASW][hapmap]
rs4944865	1.00[ASW][hapmap]
rs594814	0.89[ASW][hapmap];1.00[MEX][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs599116	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs601335	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs620059	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs627721	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs641423	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs652229	1.00[ASW][hapmap];0.91[LWK][hapmap];1.00[MKK][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6592529	1.00[ASW][hapmap]
rs7950472	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3395161	chr11:73084616-73461577	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv530624	chr11:73114283-73646329	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv492091	chr11:73285970-73844424	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	nsv1045149	chr11:73314565-73581908	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv525173	chr11:73356872-73364673	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv530641	chr11:73358393-73638725	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv521125	chr11:73359236-73378142	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv528592	chr11:73360888-73364673	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73357200-73364000	Weak transcription	Liver	Liver
2	chr11:73357800-73364200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:73358600-73363200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr11:73359000-73363200	Weak transcription	Right Atrium	heart
5	chr11:73359000-73371600	Weak transcription	Fetal Brain Female	brain
6	chr11:73359000-73371600	Weak transcription	Right Ventricle	heart
7	chr11:73359200-73363000	Weak transcription	Brain Germinal Matrix	brain
8	chr11:73359200-73363200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr11:73359200-73363200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr11:73359200-73367200	Weak transcription	Spleen	Spleen
11	chr11:73359200-73371600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr11:73359200-73371600	Weak transcription	Thymus	Thymus
13	chr11:73359200-73371800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr11:73359400-73363000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr11:73359400-73363400	Weak transcription	Stomach Mucosa	stomach
16	chr11:73359400-73367000	Weak transcription	Lung	lung
17	chr11:73359400-73371800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr11:73359600-73363400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr11:73359600-73372200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr11:73359800-73363200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr11:73359800-73371800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr11:73359800-73371800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr11:73360000-73363000	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr11:73360200-73363200	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr11:73360400-73363000	Enhancers	Brain Hippocampus Middle	brain
26	chr11:73361200-73363200	Enhancers	Brain Angular Gyrus	brain
27	chr11:73361200-73363200	Enhancers	Brain Anterior Caudate	brain
28	chr11:73361200-73363600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr11:73361400-73367800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr11:73361600-73363000	Genic enhancers	Brain Cingulate Gyrus	brain
31	chr11:73361600-73364600	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr11:73361600-73365800	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr11:73361800-73363000	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr11:73361800-73369200	Strong transcription	Primary T cells from cord blood	blood
35	chr11:73362000-73363000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr11:73362000-73375000	Weak transcription	Aorta	Aorta
37	chr11:73362200-73364000	Enhancers	Fetal Intestine Small	intestine
38	chr11:73362400-73363800	Enhancers	Fetal Muscle Trunk	muscle
39	chr11:73362400-73364200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr11:73362400-73365000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr11:73362400-73366600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr11:73362600-73363800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr11:73362600-73364000	Enhancers	Pancreas	Pancrea
44	chr11:73362600-73364400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr11:73362600-73364400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr11:73362600-73364400	Enhancers	HMEC	breast
47	chr11:73362800-73363200	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr11:73362800-73363600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr11:73362800-73363800	Enhancers	H1 Cell Line	embryonic stem cell
50	chr11:73362800-73363800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links