Variant report

Variant	rs16841800
Chromosome Location	chr3:99598624-99598625
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SPI1	chr3:99597910-99598706	GM12878	blood:	n/a	chr3:99598320-99598333 chr3:99598322-99598331 chr3:99598321-99598334

No.	Distal block	Cell Line	Cell type
1	chr3:99596926..99599142-chr3:99610230..99612159,2	K562	blood:
2	chr3:99542264..99544347-chr3:99597790..99600681,3	K562	blood:
3	chr3:99596053..99600789-chr3:99601531..99605674,5	MCF-7	breast:
4	chr3:99535566..99538083-chr3:99597488..99599046,2	K562	blood:

Variant related genes	Relation type
FILIP1L	TF binding region
ENSG00000184220	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs12330310	1.00[AFR][1000 genomes]
rs13315221	1.00[AFR][1000 genomes]
rs13323384	1.00[AFR][1000 genomes]
rs13327351	0.83[AFR][1000 genomes]
rs13353487	1.00[AFR][1000 genomes]
rs16841824	1.00[AFR][1000 genomes]
rs16841828	0.83[AFR][1000 genomes]
rs16841836	1.00[AFR][1000 genomes]
rs16846956	0.83[AFR][1000 genomes]
rs28368726	1.00[AFR][1000 genomes]
rs28411225	0.83[AFR][1000 genomes]
rs28463921	1.00[AFR][1000 genomes]
rs28508384	1.00[AFR][1000 genomes]
rs28728176	0.83[AFR][1000 genomes]
rs28816814	1.00[AFR][1000 genomes]
rs9809706	1.00[AFR][1000 genomes]
rs9810553	1.00[AFR][1000 genomes]
rs9816232	1.00[AFR][1000 genomes]
rs9820799	1.00[AFR][1000 genomes]
rs9824229	1.00[AFR][1000 genomes]
rs9825382	1.00[AFR][1000 genomes]
rs9825938	1.00[AFR][1000 genomes]
rs9828782	1.00[AFR][1000 genomes]
rs9830038	0.83[AFR][1000 genomes]
rs9831706	0.83[AFR][1000 genomes]
rs9833005	0.83[AFR][1000 genomes]
rs9835048	1.00[AFR][1000 genomes]
rs9837028	1.00[AFR][1000 genomes]
rs9837204	1.00[AFR][1000 genomes]
rs9837555	1.00[AFR][1000 genomes]
rs9841053	1.00[AFR][1000 genomes]
rs9841758	1.00[AFR][1000 genomes]
rs9843919	1.00[AFR][1000 genomes]
rs9844578	1.00[AFR][1000 genomes]
rs9844595	1.00[AFR][1000 genomes]
rs9849336	1.00[AFR][1000 genomes]
rs9849373	1.00[AFR][1000 genomes]
rs9851406	1.00[AFR][1000 genomes]
rs9851985	0.83[AFR][1000 genomes]
rs9852857	1.00[AFR][1000 genomes]
rs9860986	1.00[AFR][1000 genomes]
rs9862370	1.00[AFR][1000 genomes]
rs9868303	1.00[AFR][1000 genomes]
rs9870153	0.83[AFR][1000 genomes]
rs9871500	1.00[AFR][1000 genomes]
rs9875301	1.00[AFR][1000 genomes]
rs9883235	1.00[AFR][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	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99595200-99602800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr3:99595400-99599800	Weak transcription	Pancreas	Pancrea
3	chr3:99595400-99599800	Weak transcription	Spleen	Spleen
4	chr3:99595400-99600000	Weak transcription	Brain Angular Gyrus	brain
5	chr3:99595400-99600600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:99595400-99602800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr3:99595400-99603000	Weak transcription	Stomach Mucosa	stomach
8	chr3:99595400-99603400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:99595400-99603400	Weak transcription	Small Intestine	intestine
10	chr3:99595400-99608400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr3:99595600-99598800	Weak transcription	Fetal Stomach	stomach
12	chr3:99595600-99599200	Weak transcription	Brain Substantia Nigra	brain
13	chr3:99595600-99599800	Weak transcription	Brain Hippocampus Middle	brain
14	chr3:99595600-99599800	Weak transcription	Psoas Muscle	Psoas
15	chr3:99595600-99600400	Weak transcription	Left Ventricle	heart
16	chr3:99595600-99602600	Weak transcription	Fetal Intestine Large	intestine
17	chr3:99595600-99603200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:99595600-99607400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr3:99595600-99612800	Weak transcription	Fetal Muscle Trunk	muscle
20	chr3:99595800-99599800	Weak transcription	Brain Anterior Caudate	brain
21	chr3:99595800-99599800	Weak transcription	Fetal Intestine Small	intestine
22	chr3:99595800-99599800	Weak transcription	Right Atrium	heart
23	chr3:99595800-99600400	Weak transcription	Ovary	ovary
24	chr3:99595800-99601200	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr3:99595800-99603200	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr3:99596000-99599600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:99596000-99599800	Weak transcription	Colon Smooth Muscle	Colon
28	chr3:99596000-99599800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr3:99596000-99603000	Weak transcription	Duodenum Mucosa	Duodenum
30	chr3:99596000-99603200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:99596200-99599600	Weak transcription	Adipose Nuclei	Adipose
32	chr3:99596200-99599600	Weak transcription	Stomach Smooth Muscle	stomach
33	chr3:99596400-99599800	Weak transcription	Fetal Muscle Leg	muscle
34	chr3:99596600-99600200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr3:99596600-99614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:99596800-99600400	Weak transcription	Aorta	Aorta
37	chr3:99596800-99601000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr3:99596800-99602600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr3:99597000-99599800	Weak transcription	HSMM	muscle
40	chr3:99597000-99603400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr3:99597200-99602800	Weak transcription	K562	blood
42	chr3:99597200-99603000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr3:99597200-99603400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:99597200-99614200	Weak transcription	HMEC	breast
45	chr3:99597400-99599600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr3:99597400-99599600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr3:99597400-99599800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr3:99597400-99599800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr3:99597400-99602800	Weak transcription	NHEK	skin
50	chr3:99597600-99599600	Weak transcription	Muscle Satellite Cultured Cells	--

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