Variant report

Variant	rs16843945
Chromosome Location	chr4:3155153-3155154
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10016755	0.85[YRI][hapmap]
rs16843866	0.85[YRI][hapmap]
rs16843869	0.92[YRI][hapmap]
rs16843871	0.92[YRI][hapmap];0.83[AMR][1000 genomes]
rs16843939	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3025796	1.00[ASN][1000 genomes]
rs3025831	1.00[ASN][1000 genomes]
rs3025837	0.87[AFR][1000 genomes]
rs3025838	1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3025852	1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs3025853	1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs362294	1.00[ASN][1000 genomes]
rs363140	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs363153	1.00[YRI][hapmap]
rs56021098	0.83[AMR][1000 genomes]
rs56134819	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs56148664	0.83[AMR][1000 genomes]
rs57792935	0.83[AMR][1000 genomes]
rs57875258	0.83[AMR][1000 genomes]
rs59730955	1.00[ASN][1000 genomes]
rs60215756	0.87[AFR][1000 genomes]
rs6813198	0.87[AFR][1000 genomes]
rs6836289	0.83[AMR][1000 genomes]
rs6856403	0.87[AFR][1000 genomes]
rs73074852	1.00[ASN][1000 genomes]
rs73792195	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73792352	0.84[AFR][1000 genomes]
rs7442144	1.00[AMR][1000 genomes]
rs7667172	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7678336	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs7681277	1.00[ASN][1000 genomes]
rs7693317	0.83[YRI][hapmap]
rs7698150	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv461163	chr4:2906285-3234980	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv593437	chr4:2906285-3234980	Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription 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	52 gene(s)	inside rSNPs	diseases
5	nsv461164	chr4:3149016-3215835	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
6	nsv593439	chr4:3149016-3215835	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3088200-3164200	Strong transcription	Primary monocytes fromperipheralblood	blood
2	chr4:3097200-3162200	Strong transcription	HUES64 Cell Line	embryonic stem cell
3	chr4:3097400-3163800	Strong transcription	HUES48 Cell Line	embryonic stem cell
4	chr4:3098000-3162600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:3100000-3159400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:3108600-3163000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr4:3108800-3164600	Strong transcription	Primary neutrophils fromperipheralblood	blood
8	chr4:3114600-3292400	Weak transcription	Right Atrium	heart
9	chr4:3114800-3162800	Strong transcription	HUES6 Cell Line	embryonic stem cell
10	chr4:3115800-3161600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr4:3115800-3162800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr4:3125200-3163000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:3125200-3163200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr4:3126800-3164400	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr4:3127000-3164400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:3127200-3157200	Strong transcription	Sigmoid Colon	Sigmoid Colon
17	chr4:3127200-3163400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr4:3127200-3163400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr4:3127200-3163400	Strong transcription	Fetal Muscle Trunk	muscle
20	chr4:3127200-3163600	Strong transcription	Fetal Intestine Large	intestine
21	chr4:3127200-3164200	Strong transcription	Fetal Muscle Leg	muscle
22	chr4:3127200-3164400	Strong transcription	Primary B cells from peripheral blood	blood
23	chr4:3131200-3162600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr4:3134800-3162000	Weak transcription	Hela-S3	cervix
25	chr4:3136600-3156000	Weak transcription	Stomach Mucosa	stomach
26	chr4:3137800-3163400	Strong transcription	Liver	Liver
27	chr4:3139600-3164800	Strong transcription	Duodenum Mucosa	Duodenum
28	chr4:3144200-3161800	Strong transcription	GM12878-XiMat	blood
29	chr4:3144600-3159400	Strong transcription	Osteobl	bone
30	chr4:3145400-3156600	Strong transcription	Left Ventricle	heart
31	chr4:3145600-3164600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr4:3145800-3164000	Strong transcription	Adipose Nuclei	Adipose
33	chr4:3145800-3239200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr4:3146000-3159600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr4:3146000-3163400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr4:3146000-3163600	Strong transcription	Duodenum Smooth Muscle	Duodenum
37	chr4:3146200-3156400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr4:3146200-3162600	Strong transcription	Brain Hippocampus Middle	brain
39	chr4:3146200-3163400	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr4:3146200-3164400	Strong transcription	Fetal Thymus	thymus
41	chr4:3146400-3156800	Strong transcription	Primary hematopoietic stem cells	blood
42	chr4:3146400-3162200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr4:3146400-3162400	Strong transcription	Stomach Smooth Muscle	stomach
44	chr4:3146400-3163400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr4:3146400-3163400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr4:3146400-3163600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr4:3146400-3163800	Strong transcription	Rectal Mucosa Donor 29	rectum
48	chr4:3146400-3164400	Strong transcription	Primary T cells from cord blood	blood
49	chr4:3146400-3164800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr4:3146600-3163600	Strong transcription	Placenta	Placenta

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