Variant report

Variant	rs11922828
Chromosome Location	chr3:110919356-110919357
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:110915320..110918192-chr3:110918761..110921317,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD96-4	chr3:110917882-110920289	NONHSAT091143

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs16857659	1.00[AMR][1000 genomes]
rs16857701	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS 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	16 gene(s)	inside rSNPs	diseases
4	nsv829675	chr3:110885605-111101858	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877339	chr3:110889974-111070554	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110835600-110929600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:110853000-110919600	Weak transcription	Fetal Brain Male	brain
3	chr3:110869400-110929000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr3:110881000-110928000	Weak transcription	Osteobl	bone
5	chr3:110890800-110919800	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:110894000-110922800	Weak transcription	Gastric	stomach
7	chr3:110894000-110924000	Weak transcription	Fetal Stomach	stomach
8	chr3:110894000-110934400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:110894200-110924800	Weak transcription	Fetal Intestine Small	intestine
10	chr3:110894200-110925600	Weak transcription	NHLF	lung
11	chr3:110894200-110929600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:110899200-110935200	Weak transcription	Lung	lung
13	chr3:110903400-110929200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:110910200-110927200	Weak transcription	Rectal Smooth Muscle	rectum
15	chr3:110912000-110923800	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:110913400-110924200	Weak transcription	Stomach Smooth Muscle	stomach
17	chr3:110913400-110932000	Weak transcription	Fetal Heart	heart
18	chr3:110914200-110924000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr3:110914200-110925800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr3:110914400-110921800	Weak transcription	Aorta	Aorta
21	chr3:110914400-110924200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr3:110914400-110924200	Weak transcription	Left Ventricle	heart
23	chr3:110914400-110928400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:110914600-110919600	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:110914600-110922000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:110915000-110924000	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr3:110915000-110934200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:110915200-110919600	Weak transcription	Ovary	ovary
29	chr3:110915400-110928000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:110915600-110929800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:110916000-110928200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:110916200-110925600	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr3:110916400-110924400	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr3:110916600-110921200	Weak transcription	Fetal Intestine Large	intestine
35	chr3:110916600-110923800	Weak transcription	Dnd41	blood
36	chr3:110916800-110923800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr3:110917000-110919800	Weak transcription	A549	lung
38	chr3:110917000-110921000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:110917000-110921800	Weak transcription	Duodenum Mucosa	Duodenum
40	chr3:110917000-110922600	Weak transcription	NH-A	brain
41	chr3:110917000-110923400	Weak transcription	Liver	Liver
42	chr3:110917000-110933400	Weak transcription	Placenta	Placenta
43	chr3:110917200-110924200	Weak transcription	Fetal Lung	lung
44	chr3:110917200-110929000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr3:110917400-110923400	Weak transcription	Adipose Nuclei	Adipose
46	chr3:110917600-110921800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:110917600-110928000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:110918000-110919400	Enhancers	iPS-18 Cell Line	embryonic stem cell
49	chr3:110918200-110919400	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr3:110918200-110920000	Enhancers	HSMMtube	muscle

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