Variant report

Variant	rs7103860
Chromosome Location	chr11:4110148-4110149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:4109002..4112620-chr11:4113600..4116906,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RRM1-4	chr11:4110114-4110315	NONHSAT017636

Variant related genes	Relation type
ENSG00000167325	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1042919	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs1042927	0.82[JPT][hapmap]
rs10767827	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10767828	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10767851	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs10767853	0.80[CHB][hapmap];0.83[JPT][hapmap]
rs10835605	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1348310	0.80[CHB][hapmap]
rs1561876	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1662162	0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1735068	0.85[CHB][hapmap];0.82[JPT][hapmap];0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3794050	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4365044	0.90[CHB][hapmap]
rs4910882	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910883	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910895	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs4910896	0.82[JPT][hapmap]
rs4910897	0.82[JPT][hapmap]
rs4910907	0.81[JPT][hapmap]
rs4910908	0.82[JPT][hapmap]
rs4910909	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs4910910	0.84[JPT][hapmap]
rs4910911	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs4910912	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs6578440	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6578446	0.82[JPT][hapmap]
rs6578448	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7104462	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7932271	0.82[JPT][hapmap]
rs7933164	0.91[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7945532	0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7946885	0.82[JPT][hapmap]
rs7951836	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs992980	0.80[CHB][hapmap];0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	esv2758253	chr11:4055945-4510188	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	esv2759797	chr11:4055945-4510188	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv428248	chr11:4055945-4510188	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
5	nsv832053	chr11:4096527-4330263	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4079000-4112600	Weak transcription	Fetal Brain Female	brain
2	chr11:4086200-4115200	Weak transcription	NHDF-Ad	bronchial
3	chr11:4087600-4115000	Weak transcription	HSMMtube	muscle
4	chr11:4093600-4112600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr11:4093800-4115000	Weak transcription	Brain Germinal Matrix	brain
6	chr11:4093800-4115200	Weak transcription	Fetal Kidney	kidney
7	chr11:4094000-4115000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:4094000-4115000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:4094000-4115200	Weak transcription	Brain Substantia Nigra	brain
10	chr11:4098200-4115000	Weak transcription	Hela-S3	cervix
11	chr11:4099400-4111200	Strong transcription	Fetal Thymus	thymus
12	chr11:4100200-4115200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr11:4100400-4110400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr11:4100600-4115200	Weak transcription	NHLF	lung
15	chr11:4101000-4110600	Strong transcription	Primary B cells from peripheral blood	blood
16	chr11:4101400-4112800	Strong transcription	Thymus	Thymus
17	chr11:4101400-4113600	Strong transcription	Primary B cells from cord blood	blood
18	chr11:4101400-4114000	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr11:4101400-4114200	Strong transcription	Stomach Smooth Muscle	stomach
20	chr11:4101600-4113200	Strong transcription	Dnd41	blood
21	chr11:4101600-4113800	Strong transcription	Adipose Nuclei	Adipose
22	chr11:4101800-4112000	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr11:4101800-4113400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr11:4101800-4114000	Strong transcription	Fetal Stomach	stomach
25	chr11:4102000-4113200	Strong transcription	Liver	Liver
26	chr11:4102200-4114000	Strong transcription	Spleen	Spleen
27	chr11:4102400-4110200	Strong transcription	Duodenum Smooth Muscle	Duodenum
28	chr11:4102400-4113400	Strong transcription	Skeletal Muscle Female	skeletal muscle
29	chr11:4102400-4115200	Weak transcription	Fetal Brain Male	brain
30	chr11:4103000-4115200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr11:4103200-4115200	Weak transcription	Muscle Satellite Cultured Cells	--
32	chr11:4103400-4112800	Strong transcription	Fetal Muscle Trunk	muscle
33	chr11:4103400-4114000	Strong transcription	Skeletal Muscle Male	skeletal muscle
34	chr11:4104200-4113800	Strong transcription	Fetal Muscle Leg	muscle
35	chr11:4104800-4112600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr11:4105000-4111000	Weak transcription	HMEC	breast
37	chr11:4105800-4115200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr11:4106200-4114200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr11:4106600-4110200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr11:4106600-4115400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr11:4107000-4112200	Strong transcription	GM12878-XiMat	blood
42	chr11:4107200-4112600	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr11:4107400-4110400	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr11:4107400-4112000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr11:4107400-4112800	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr11:4107600-4110400	Strong transcription	Lung	lung
47	chr11:4107600-4110600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr11:4107600-4113000	Strong transcription	Primary hematopoietic stem cells	blood
49	chr11:4107600-4113200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr11:4107800-4110200	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain

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