Variant report

Variant	rs11174560
Chromosome Location	chr12:63003405-63003406
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:63000207..63003968-chr12:63019804..63022918,4	MCF-7	breast:
2	chr12:62970137..62973031-chr12:63002961..63005060,2	K562	blood:
3	chr12:63001464..63003461-chr12:63192756..63195613,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MON2-2	chr12:62997216-63015942	NONHSAT029092
2	lnc-MON2-2	chr12:63002556-63003417	NONHSAT029094

Variant related genes	Relation type
ENSG00000061987	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10877892	0.98[ASN][1000 genomes]
rs11174515	0.83[EUR][1000 genomes]
rs11174531	0.83[EUR][1000 genomes]
rs11174549	0.93[EUR][1000 genomes]
rs11174554	0.93[EUR][1000 genomes]
rs11174558	0.95[EUR][1000 genomes]
rs11174561	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11174566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11174567	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11559995	0.83[EUR][1000 genomes]
rs12161814	0.83[EUR][1000 genomes]
rs12229932	0.91[EUR][1000 genomes]
rs3825305	0.85[EUR][1000 genomes]
rs4405369	0.83[EUR][1000 genomes]
rs4494347	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302781	0.83[EUR][1000 genomes]
rs74095806	0.83[EUR][1000 genomes]
rs74095822	0.87[EUR][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	nsv821671	chr12:62794304-63007964	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:62997800-63012800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr12:62997800-63019200	Weak transcription	Spleen	Spleen
3	chr12:62998000-63010200	Weak transcription	Lung	lung
4	chr12:62998000-63019200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr12:62998800-63012800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr12:62999000-63004600	Weak transcription	Left Ventricle	heart
7	chr12:62999000-63006800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr12:62999000-63019200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr12:62999200-63005600	Weak transcription	Fetal Intestine Small	intestine
10	chr12:62999200-63012200	Weak transcription	Fetal Thymus	thymus
11	chr12:62999200-63013200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr12:62999400-63010800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr12:62999400-63012000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr12:62999400-63025000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr12:62999600-63011600	Weak transcription	Fetal Stomach	stomach
16	chr12:62999600-63012800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr12:62999800-63004400	Weak transcription	HepG2	liver
18	chr12:62999800-63012600	Weak transcription	Brain Hippocampus Middle	brain
19	chr12:62999800-63013400	Weak transcription	Primary B cells from cord blood	blood
20	chr12:63000000-63009400	Weak transcription	HSMMtube	muscle
21	chr12:63000000-63012400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr12:63000000-63019000	Weak transcription	Adipose Nuclei	Adipose
23	chr12:63000200-63004600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr12:63000200-63006200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr12:63000200-63012400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr12:63000200-63013000	Weak transcription	NHLF	lung
27	chr12:63000200-63015000	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr12:63000200-63020600	Weak transcription	HMEC	breast
29	chr12:63000600-63003600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr12:63000600-63006000	Weak transcription	NHDF-Ad	bronchial
31	chr12:63000600-63009000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr12:63000600-63009200	Weak transcription	Psoas Muscle	Psoas
33	chr12:63000600-63019200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr12:63000800-63009800	Weak transcription	Fetal Muscle Leg	muscle
35	chr12:63000800-63011200	Weak transcription	Aorta	Aorta
36	chr12:63000800-63014600	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr12:63000800-63024200	Weak transcription	Fetal Brain Female	brain
38	chr12:63001000-63003600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr12:63001000-63005000	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr12:63001000-63006000	Weak transcription	NH-A	brain
41	chr12:63001000-63007000	Weak transcription	Fetal Brain Male	brain
42	chr12:63001000-63019400	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr12:63001200-63003800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr12:63001200-63010000	Weak transcription	Brain Germinal Matrix	brain
45	chr12:63001200-63011400	Weak transcription	HUVEC	blood vessel
46	chr12:63001600-63003600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr12:63001800-63004600	Enhancers	A549	lung
48	chr12:63001800-63006400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr12:63002000-63006000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr12:63002000-63007200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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