Variant report

Variant	rs34106738
Chromosome Location	chr3:150181750-150181751
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150180024..150184025-chr3:150205497..150208390,3	K562	blood:
2	chr3:150179991..150182709-chr3:150186253..150188637,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TSC22D2-1	chr3:150180867-150182122	XLOC_002872
2	lnc-TSC22D2-1	chr3:150180819-150182122	NONHSAT092690
3	lnc-TSC22D2-1	chr3:150181245-150184218	ENSG00000261050.1

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10513368	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10513369	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10513370	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10513371	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10513372	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10513375	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713072	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11714034	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11714123	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11925759	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11928577	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11928948	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066114	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13067910	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13068946	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13073230	0.93[ASN][1000 genomes]
rs13076419	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13089766	0.91[EUR][1000 genomes]
rs13317818	0.89[ASN][1000 genomes]
rs1376027	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17278131	0.86[ASN][1000 genomes]
rs28571974	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28587291	0.89[ASN][1000 genomes]
rs2868430	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34156311	0.93[ASN][1000 genomes]
rs34419133	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34503712	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34647320	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34983941	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35019980	0.91[EUR][1000 genomes]
rs35234277	0.82[ASN][1000 genomes]
rs35598887	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3749400	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3811719	0.89[ASN][1000 genomes]
rs61734437	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs66816665	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67073112	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67100311	0.91[EUR][1000 genomes]
rs6791546	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6799106	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6799981	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73165716	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73167540	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7614772	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7618493	0.89[ASN][1000 genomes]
rs7620193	0.89[ASN][1000 genomes]
rs7621019	0.89[ASN][1000 genomes]
rs7623100	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9827736	0.82[ASN][1000 genomes]
rs9844735	0.89[ASN][1000 genomes]
rs9875752	0.89[ASN][1000 genomes]
rs9879140	0.89[ASN][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	nsv877645	chr3:150103135-150212698	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150165600-150187200	Weak transcription	Small Intestine	intestine
2	chr3:150166000-150186200	Weak transcription	Brain Germinal Matrix	brain
3	chr3:150166400-150185600	Weak transcription	Lung	lung
4	chr3:150172000-150184800	Weak transcription	Brain Substantia Nigra	brain
5	chr3:150172600-150191600	Weak transcription	Brain Angular Gyrus	brain
6	chr3:150173800-150186400	Weak transcription	Colonic Mucosa	Colon
7	chr3:150174600-150186400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:150175000-150184200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:150176400-150182200	Weak transcription	Fetal Stomach	stomach
10	chr3:150176600-150186400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:150176600-150187000	Weak transcription	Fetal Intestine Small	intestine
12	chr3:150176800-150183000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr3:150176800-150183200	Weak transcription	Ovary	ovary
14	chr3:150176800-150183600	Weak transcription	Primary B cells from peripheral blood	blood
15	chr3:150176800-150183600	Weak transcription	Fetal Muscle Trunk	muscle
16	chr3:150176800-150184400	Weak transcription	Fetal Brain Female	brain
17	chr3:150176800-150185000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr3:150176800-150185000	Weak transcription	NHEK	skin
19	chr3:150176800-150186400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:150176800-150186800	Weak transcription	Primary T cells from cord blood	blood
21	chr3:150176800-150187000	Weak transcription	Fetal Intestine Large	intestine
22	chr3:150176800-150187000	Weak transcription	Left Ventricle	heart
23	chr3:150176800-150187000	Weak transcription	Pancreas	Pancrea
24	chr3:150176800-150187000	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr3:150176800-150187200	Weak transcription	Brain Anterior Caudate	brain
26	chr3:150176800-150187200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr3:150176800-150187200	Weak transcription	Fetal Muscle Leg	muscle
28	chr3:150176800-150187200	Weak transcription	Right Ventricle	heart
29	chr3:150176800-150187200	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr3:150176800-150187400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr3:150176800-150187400	Weak transcription	Thymus	Thymus
32	chr3:150176800-150187600	Weak transcription	Esophagus	oesophagus
33	chr3:150176800-150187600	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:150177000-150200600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:150177200-150181800	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr3:150177200-150183000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr3:150177200-150185200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr3:150177200-150185200	Weak transcription	HMEC	breast
39	chr3:150177200-150186400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:150177200-150186400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr3:150177200-150187200	Weak transcription	Colon Smooth Muscle	Colon
42	chr3:150177400-150186400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:150177400-150187600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:150177600-150185200	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr3:150177600-150186000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr3:150177600-150186400	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr3:150177600-150186400	Weak transcription	Placenta	Placenta
48	chr3:150177800-150185000	Weak transcription	Primary monocytes fromperipheralblood	blood
49	chr3:150177800-150185200	Weak transcription	HUES6 Cell Line	embryonic stem cell
50	chr3:150177800-150185800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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