Variant report

Variant	rs73071917
Chromosome Location	chr3:46599177-46599178
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	chr3:46529686..46530942-chr3:46599020..46600485,46	MCF-7	breast:
2	chr3:46498573..46499197-chr3:46599063..46599998,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TDGF1-2	chr3:46599164-46599225	NONHSAT089447

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs2280408	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280409	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280410	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280413	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2280414	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2293021	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2293022	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2293023	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2293024	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2293025	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28617572	0.84[ASN][1000 genomes]
rs28687398	0.81[ASN][1000 genomes]
rs3189859	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3806704	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3827493	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4312690	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55649212	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55693118	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55736632	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55763532	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55923987	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55955974	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55957516	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56008703	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs56048308	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56163098	0.80[AMR][1000 genomes]
rs56168669	0.80[AMR][1000 genomes]
rs56188400	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56197743	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56394040	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56398705	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56695799	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58177689	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58551379	0.80[AMR][1000 genomes]
rs58572135	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59673973	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59836693	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs73069984	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73069987	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73069989	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73069992	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73069996	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73069997	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73071919	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73071930	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73071938	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73072002	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73073704	0.81[ASN][1000 genomes]
rs73073732	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073734	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073742	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73073744	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073745	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073746	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073750	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073752	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073753	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73073754	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73073755	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73075515	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73075519	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73075524	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73075528	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73075564	0.92[AMR][1000 genomes]
rs73075571	0.92[AMR][1000 genomes]
rs73077539	0.80[AMR][1000 genomes]
rs73077544	0.80[AMR][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	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46544800-46599400	Weak transcription	Right Atrium	heart
2	chr3:46578400-46599200	Weak transcription	HSMMtube	muscle
3	chr3:46581200-46599200	Weak transcription	Fetal Heart	heart
4	chr3:46581600-46599400	Weak transcription	Spleen	Spleen
5	chr3:46587800-46599600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr3:46588400-46599600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:46591000-46599400	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:46591000-46599600	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:46591400-46599200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:46591400-46599200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr3:46591400-46599200	Weak transcription	Gastric	stomach
12	chr3:46591400-46599200	Weak transcription	Right Ventricle	heart
13	chr3:46591400-46599400	Weak transcription	Lung	lung
14	chr3:46591400-46600200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:46591600-46599800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:46591600-46600000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr3:46591800-46606600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:46592600-46599200	Weak transcription	Thymus	Thymus
19	chr3:46592800-46599200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:46592800-46599200	Weak transcription	Primary T cells from cord blood	blood
21	chr3:46593000-46599200	Weak transcription	K562	blood
22	chr3:46593000-46600200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:46593200-46600000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr3:46593200-46600000	Weak transcription	Ovary	ovary
25	chr3:46595200-46599200	Weak transcription	Psoas Muscle	Psoas
26	chr3:46595200-46599400	Weak transcription	Adipose Nuclei	Adipose
27	chr3:46595200-46599400	Weak transcription	Liver	Liver
28	chr3:46595400-46599200	Weak transcription	Left Ventricle	heart
29	chr3:46597000-46600000	Enhancers	HUVEC	blood vessel
30	chr3:46597400-46599400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr3:46597600-46599200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:46597800-46600000	Enhancers	Muscle Satellite Cultured Cells	--
33	chr3:46597800-46600000	Enhancers	Hela-S3	cervix
34	chr3:46598000-46599600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr3:46598000-46599800	Enhancers	NHEK	skin
36	chr3:46598400-46599200	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr3:46598400-46599400	Genic enhancers	Skeletal Muscle Male	skeletal muscle
38	chr3:46598400-46599800	Enhancers	HMEC	breast
39	chr3:46598400-46600000	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr3:46598400-46600000	Enhancers	HSMM	muscle
41	chr3:46598400-46600200	Enhancers	iPS-20b Cell Line	embryonic stem cell
42	chr3:46598400-46601000	Enhancers	HUES6 Cell Line	embryonic stem cell
43	chr3:46598600-46599400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:46598600-46599600	Enhancers	Osteobl	bone
45	chr3:46598600-46599800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr3:46598600-46600000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr3:46598600-46600000	Enhancers	NH-A	brain
48	chr3:46598800-46599600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr3:46598800-46599800	Enhancers	H9 Cell Line	embryonic stem cell
50	chr3:46598800-46600000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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