Variant report

Variant	rs10129307
Chromosome Location	chr14:71178861-71178862
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	chr14:71131895..71134522-chr14:71177148..71179361,2	MCF-7	breast:
2	chr14:71108009..71109875-chr14:71177091..71179154,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC9-1	chr14:71178727-71178870	ENSG00000258689.1

Variant related genes	Relation type
ENSG00000133985	Chromatin interaction
ENSG00000245466	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1034769	0.81[CEU][hapmap]
rs12589737	0.81[CEU][hapmap]
rs12879569	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1476610	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2107666	0.81[CEU][hapmap]
rs2158526	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2158527	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2332458	0.81[CEU][hapmap]
rs3814872	0.81[CEU][hapmap]
rs4141095	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4899367	0.89[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs4899368	0.81[CEU][hapmap];0.88[AMR][1000 genomes]
rs4902852	0.81[CEU][hapmap]
rs6573978	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7140653	0.81[CEU][hapmap]
rs7152246	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7152516	0.81[CEU][hapmap]
rs8006424	0.89[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs8011047	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[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	nsv1039460	chr14:71176898-71371125	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:71165400-71180000	Weak transcription	Aorta	Aorta
2	chr14:71168400-71181000	Weak transcription	Left Ventricle	heart
3	chr14:71174200-71179800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr14:71174400-71179600	Weak transcription	Spleen	Spleen
5	chr14:71174400-71179800	Weak transcription	Gastric	stomach
6	chr14:71174600-71180000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr14:71174600-71180200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr14:71174600-71185600	Weak transcription	Lung	lung
9	chr14:71175800-71180600	Enhancers	Brain Germinal Matrix	brain
10	chr14:71176200-71180000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr14:71176800-71180000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr14:71176800-71180200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr14:71177000-71180000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr14:71177000-71182200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr14:71177200-71179200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr14:71177200-71179600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr14:71177200-71179600	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr14:71177200-71179600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr14:71177200-71179600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr14:71177200-71179600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr14:71177200-71179800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr14:71177200-71179800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr14:71177200-71180000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr14:71177200-71180200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr14:71177200-71180200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr14:71177200-71183200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr14:71177200-71185200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr14:71177200-71195600	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr14:71177400-71179600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr14:71177400-71183200	Weak transcription	NHEK	skin
31	chr14:71177400-71183600	Weak transcription	HMEC	breast
32	chr14:71177400-71183800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr14:71177600-71179800	Weak transcription	HepG2	liver
34	chr14:71177800-71179200	Weak transcription	GM12878-XiMat	blood
35	chr14:71178400-71179800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr14:71178600-71179800	Weak transcription	Primary B cells from peripheral blood	blood
37	chr14:71178600-71180200	Weak transcription	Fetal Brain Male	brain
38	chr14:71178600-71189800	Weak transcription	Fetal Brain Female	brain

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