Variant report

Variant	rs10741708
Chromosome Location	chr11:16764227-16764228
allele	A/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	chr11:16762709-16764355	GM12878	blood:	n/a	n/a
2	POLR2A	chr11:16762781-16764253	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr11:16763755-16764479	HepG2	liver:	n/a	n/a
4	POLR2A	chr11:16762679-16765542	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr11:16763526-16765158	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:16760049..16762745-chr11:16763187..16764939,3	MCF-7	breast:
2	chr11:16762822..16764327-chr11:16779729..16781510,2	MCF-7	breast:
3	chr11:16761361..16764357-chr11:16767480..16769884,3	MCF-7	breast:

Variant related genes	Relation type
C11orf58	TF binding region
SOX6	TF binding region
ENSG00000110696	Chromatin interaction
ENSG00000110693	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10734249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12794768	0.85[EUR][1000 genomes]
rs12799800	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12799969	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12804277	0.85[EUR][1000 genomes]
rs1501451	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1846936	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1967192	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1995343	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2221243	0.83[EUR][1000 genomes]
rs34097789	0.85[EUR][1000 genomes]
rs34812104	0.85[EUR][1000 genomes]
rs3802963	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3921675	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4756862	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4757428	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4757431	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs4757432	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6486310	0.83[ASN][1000 genomes]
rs6486312	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7110136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7117140	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7125008	0.89[EUR][1000 genomes]
rs7125262	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7128484	0.87[EUR][1000 genomes]
rs7931915	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7939889	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7944906	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16761400-16783000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr11:16761600-16765200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
3	chr11:16761600-16766800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr11:16761800-16765600	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr11:16761800-16765600	Weak transcription	Fetal Stomach	stomach
6	chr11:16761800-16767400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr11:16762000-16765000	Genic enhancers	K562	blood
8	chr11:16762000-16766800	Weak transcription	Fetal Kidney	kidney
9	chr11:16762000-16766800	Weak transcription	NHDF-Ad	bronchial
10	chr11:16762000-16767200	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr11:16762000-16767400	Weak transcription	HSMMtube	muscle
12	chr11:16762000-16771800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr11:16762200-16764400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr11:16762200-16764600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr11:16762200-16764600	Genic enhancers	Cortex derived primary cultured neurospheres	brain
16	chr11:16762200-16765200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr11:16762200-16765600	Weak transcription	HMEC	breast
18	chr11:16762200-16766200	Weak transcription	Fetal Intestine Large	intestine
19	chr11:16762200-16766200	Weak transcription	HSMM	muscle
20	chr11:16762200-16766600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr11:16762200-16766600	Enhancers	Brain Anterior Caudate	brain
22	chr11:16762200-16767400	Weak transcription	NHLF	lung
23	chr11:16762200-16767600	Weak transcription	Brain Germinal Matrix	brain
24	chr11:16762200-16768800	Weak transcription	H9 Cell Line	embryonic stem cell
25	chr11:16762200-16771000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr11:16762200-16771000	Weak transcription	Right Ventricle	heart
27	chr11:16762200-16771200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr11:16762200-16780200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr11:16762400-16764800	Weak transcription	NHEK	skin
30	chr11:16762400-16766000	Genic enhancers	HepG2	liver
31	chr11:16762600-16766000	Genic enhancers	Hela-S3	cervix
32	chr11:16762800-16764600	Genic enhancers	HUVEC	blood vessel
33	chr11:16762800-16764800	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
34	chr11:16762800-16765000	Enhancers	Fetal Heart	heart
35	chr11:16762800-16765400	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
36	chr11:16762800-16765400	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr11:16762800-16766000	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
38	chr11:16762800-16767000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr11:16763000-16764400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr11:16763000-16764600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr11:16763000-16764600	Enhancers	Brain Angular Gyrus	brain
42	chr11:16763000-16765800	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr11:16763000-16766200	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr11:16763000-16768800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
45	chr11:16763000-16780600	Strong transcription	Fetal Thymus	thymus
46	chr11:16763200-16764600	Genic enhancers	HUES64 Cell Line	embryonic stem cell
47	chr11:16763200-16764600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr11:16763200-16764600	Enhancers	Brain Hippocampus Middle	brain
49	chr11:16763200-16765000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr11:16763200-16765800	Weak transcription	Colonic Mucosa	Colon

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