Variant report

Variant	rs10768006
Chromosome Location	chr11:33588650-33588651
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:33587229..33589427-chr11:33594919..33597666,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10437629	0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10836075	0.81[CEU][hapmap]
rs11032297	0.86[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11822320	0.87[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs12576242	0.87[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs12576953	0.91[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs2073174	0.94[JPT][hapmap]
rs2076622	0.94[JPT][hapmap]
rs2076624	0.94[JPT][hapmap]
rs2281379	0.85[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2281380	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2281381	0.96[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56719871	0.94[ASN][1000 genomes]
rs59919306	0.81[ASN][1000 genomes]
rs60647863	0.83[ASN][1000 genomes]
rs7115532	0.94[JPT][hapmap]
rs7117353	0.94[JPT][hapmap]
rs7949404	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533840	chr11:33008192-33595324	Bivalent Enhancer Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
2	nsv1044478	chr11:33008435-33656273	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv1050944	chr11:33043155-33656273	Flanking Active TSS Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv540993	chr11:33043155-33656273	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
5	nsv529212	chr11:33053073-33641691	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
6	nsv869418	chr11:33053073-33662479	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
7	nsv521130	chr11:33068389-33602913	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
8	nsv1041680	chr11:33249367-33637249	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv540997	chr11:33249367-33637249	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv832112	chr11:33469782-33683052	Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10768006	C11orf41	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:33555200-33617600	Weak transcription	Fetal Brain Male	brain
2	chr11:33568200-33606600	Weak transcription	HUVEC	blood vessel
3	chr11:33569800-33605000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr11:33575400-33589000	Weak transcription	Brain Germinal Matrix	brain
5	chr11:33578800-33599600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr11:33579400-33594400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr11:33579400-33605000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr11:33579600-33594400	Weak transcription	HSMMtube	muscle
9	chr11:33579600-33605600	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr11:33579600-33607000	Weak transcription	Osteobl	bone
11	chr11:33580000-33594200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr11:33580000-33597600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr11:33580000-33598400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr11:33580200-33596400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr11:33582200-33598200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:33582600-33590000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr11:33587000-33594200	Weak transcription	Brain Angular Gyrus	brain
18	chr11:33587000-33615400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr11:33587000-33615600	Weak transcription	Brain Cingulate Gyrus	brain
20	chr11:33587200-33588800	Weak transcription	Brain Anterior Caudate	brain
21	chr11:33587200-33590200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr11:33587200-33594400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr11:33587400-33588800	Enhancers	Placenta	Placenta
24	chr11:33588000-33589400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr11:33588000-33591000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr11:33588000-33591400	Strong transcription	NH-A	brain
27	chr11:33588200-33610600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr11:33588400-33588800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr11:33588400-33591600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr11:33588600-33588800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr11:33588600-33588800	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr11:33588600-33588800	Enhancers	H9 Cell Line	embryonic stem cell
33	chr11:33588600-33590600	Strong transcription	Cortex derived primary cultured neurospheres	brain
34	chr11:33588600-33591200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr11:33588600-33594000	Strong transcription	Fetal Brain Female	brain

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