Variant report

Variant	rs12277410
Chromosome Location	chr11:73116547-73116548
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:73112653..73117037-chr11:73375086..73378284,4	MCF-7	breast:
2	chr11:73113711..73116580-chr11:73369932..73372135,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000021300	Chromatin interaction
ENSG00000252732	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10047427	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10082565	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10128665	1.00[AMR][1000 genomes]
rs1054726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235732	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235735	0.93[AFR][1000 genomes]
rs11235744	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235756	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235758	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235766	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235769	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235774	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11235777	1.00[AMR][1000 genomes]
rs11235781	1.00[AMR][1000 genomes]
rs11235782	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11235804	1.00[AMR][1000 genomes]
rs11235808	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11235817	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11819847	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11822755	1.00[YRI][hapmap]
rs11822862	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11823113	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11823115	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12269810	1.00[AMR][1000 genomes]
rs12273771	1.00[AMR][1000 genomes]
rs12274281	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12274787	0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12279375	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12279753	1.00[AMR][1000 genomes]
rs12281470	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12282576	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12285337	1.00[AMR][1000 genomes]
rs12286840	1.00[AMR][1000 genomes]
rs12286967	1.00[AMR][1000 genomes]
rs12287264	1.00[AMR][1000 genomes]
rs12287335	1.00[AMR][1000 genomes]
rs12290126	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12295567	1.00[AMR][1000 genomes]
rs13377500	0.89[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17132094	1.00[AMR][1000 genomes]
rs17132131	0.94[YRI][hapmap];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73096200-73130200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr11:73097200-73117600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr11:73098600-73126000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr11:73098600-73132400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr11:73099200-73139800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr11:73099200-73141000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr11:73099600-73119200	Weak transcription	Fetal Lung	lung
8	chr11:73100000-73116600	Weak transcription	Pancreas	Pancrea
9	chr11:73100000-73118400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr11:73100200-73117400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr11:73100600-73118600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr11:73101200-73124800	Weak transcription	Psoas Muscle	Psoas
13	chr11:73103600-73118400	Weak transcription	Esophagus	oesophagus
14	chr11:73103800-73116600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:73104600-73123400	Strong transcription	Fetal Stomach	stomach
16	chr11:73104800-73122600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr11:73105200-73116800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr11:73105800-73116600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr11:73106400-73116600	Weak transcription	Gastric	stomach
20	chr11:73106400-73120200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr11:73107800-73117600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr11:73110000-73120000	Weak transcription	Colon Smooth Muscle	Colon
23	chr11:73110200-73116600	Weak transcription	Right Ventricle	heart
24	chr11:73110400-73116600	Weak transcription	NHEK	skin
25	chr11:73110600-73121600	Weak transcription	NHDF-Ad	bronchial
26	chr11:73110600-73123200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr11:73110800-73123000	Weak transcription	HUVEC	blood vessel
28	chr11:73110800-73123200	Weak transcription	NH-A	brain
29	chr11:73110800-73124000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr11:73111400-73123200	Strong transcription	Thymus	Thymus
31	chr11:73112200-73117200	Weak transcription	Fetal Brain Male	brain
32	chr11:73112800-73118000	Strong transcription	GM12878-XiMat	blood
33	chr11:73112800-73120000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr11:73112800-73121200	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr11:73112800-73123400	Strong transcription	Brain Germinal Matrix	brain
36	chr11:73113000-73116600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr11:73113000-73118800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr11:73113000-73119000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr11:73113000-73126200	Weak transcription	Small Intestine	intestine
40	chr11:73113400-73117800	Weak transcription	HSMMtube	muscle
41	chr11:73113400-73125000	Weak transcription	Right Atrium	heart
42	chr11:73113600-73118400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr11:73113600-73132600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr11:73113800-73118400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr11:73113800-73120600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr11:73113800-73121600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
47	chr11:73113800-73122800	Strong transcription	Fetal Intestine Small	intestine
48	chr11:73114000-73116600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr11:73114000-73116600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr11:73114200-73120200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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