Variant report

Variant	rs73213995
Chromosome Location	chr3:196196046-196196047
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:196183704..196185237-chr3:196195046..196197867,2	K562	blood:
2	chr3:196192779..196196308-chr3:196197005..196200589,3	K562	blood:
3	chr3:196194808..196197230-chr3:196197915..196199968,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C3orf43-2	chr3:196195811-196197084	NONHSAT094343
2	lnc-C3orf43-2	chr3:196195811-196197773	NONHSAT094344

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs56233974	0.98[EUR][1000 genomes]
rs60280349	0.98[EUR][1000 genomes]
rs61457417	0.96[EUR][1000 genomes]
rs73213994	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73213996	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73213997	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73214001	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73219637	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73219638	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73219639	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73219640	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73219641	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73219645	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73219647	0.98[EUR][1000 genomes]
rs73219648	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73219649	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73891247	0.98[EUR][1000 genomes]
rs9754933	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997797	chr3:195658360-196212958	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1003194	chr3:195960270-196342423	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv536894	chr3:195960270-196342423	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
4	nsv878182	chr3:195974181-196228360	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
5	nsv469831	chr3:196071603-196235225	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv482542	chr3:196071603-196235225	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
7	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
8	esv2752687	chr3:196147690-196286690	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
9	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
10	nsv878185	chr3:196158773-196199204	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv878186	chr3:196158773-196219794	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
12	esv3349428	chr3:196168691-196197042	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196171000-196198400	Weak transcription	Fetal Brain Female	brain
2	chr3:196171400-196198600	Weak transcription	Ovary	ovary
3	chr3:196171800-196197600	Weak transcription	Brain Anterior Caudate	brain
4	chr3:196171800-196198200	Weak transcription	NHDF-Ad	bronchial
5	chr3:196172200-196198200	Weak transcription	Aorta	Aorta
6	chr3:196173000-196198600	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:196173200-196198200	Weak transcription	Brain Angular Gyrus	brain
8	chr3:196174800-196198200	Weak transcription	Right Ventricle	heart
9	chr3:196175200-196198200	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:196175200-196198400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:196177000-196198400	Weak transcription	Pancreas	Pancrea
12	chr3:196177200-196198200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr3:196177800-196198200	Weak transcription	Gastric	stomach
14	chr3:196177800-196198600	Weak transcription	Small Intestine	intestine
15	chr3:196178200-196197400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr3:196178200-196197600	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr3:196178200-196198000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr3:196178200-196198400	Weak transcription	Brain Germinal Matrix	brain
19	chr3:196178200-196198600	Weak transcription	Psoas Muscle	Psoas
20	chr3:196180400-196197400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:196180600-196197400	Weak transcription	Adipose Nuclei	Adipose
22	chr3:196180600-196198400	Weak transcription	Primary hematopoietic stem cells	blood
23	chr3:196182200-196197600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr3:196182200-196198000	Weak transcription	Duodenum Mucosa	Duodenum
25	chr3:196182200-196198200	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:196182200-196213600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:196182400-196198000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr3:196182600-196198400	Weak transcription	Left Ventricle	heart
29	chr3:196182800-196197400	Weak transcription	Primary T cells from cord blood	blood
30	chr3:196183000-196197600	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:196183000-196198400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr3:196184600-196198200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr3:196185000-196196400	Weak transcription	Primary T helper cells PMA-I stimulated	--
34	chr3:196185000-196198200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr3:196185200-196196200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr3:196185200-196198600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
37	chr3:196186000-196196800	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr3:196186000-196197400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr3:196187600-196198400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:196187800-196197400	Weak transcription	Lung	lung
41	chr3:196189200-196198400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr3:196189200-196198400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr3:196189600-196198400	Weak transcription	Spleen	Spleen
44	chr3:196190600-196198400	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr3:196190800-196198200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:196190800-196198200	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr3:196191000-196198400	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr3:196191200-196196600	Weak transcription	K562	blood
49	chr3:196191200-196198400	Weak transcription	Fetal Intestine Large	intestine
50	chr3:196191800-196197600	Weak transcription	Fetal Muscle Trunk	muscle

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