Variant report

Variant	rs61331336
Chromosome Location	chr3:52990031-52990032
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs34397833	1.00[AMR][1000 genomes]
rs35981653	1.00[AMR][1000 genomes]
rs56665986	0.83[AFR][1000 genomes]
rs56895623	0.85[AFR][1000 genomes]
rs57273027	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57465047	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57561909	0.80[AFR][1000 genomes]
rs57640885	1.00[AMR][1000 genomes]
rs57654423	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58249114	0.85[AFR][1000 genomes]
rs58888768	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59224641	0.83[AFR][1000 genomes]
rs59838592	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60207422	1.00[AMR][1000 genomes]
rs60648378	0.83[AFR][1000 genomes]
rs60805548	1.00[AMR][1000 genomes]
rs61324750	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6776862	1.00[AMR][1000 genomes]
rs6798309	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6798669	0.85[AFR][1000 genomes]
rs72954390	1.00[AMR][1000 genomes]
rs72954402	1.00[AMR][1000 genomes]
rs72959475	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959477	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959478	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959479	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959482	0.85[AFR][1000 genomes]
rs72959487	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959494	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72959499	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961704	0.85[AFR][1000 genomes]
rs72961705	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961708	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961711	1.00[AMR][1000 genomes]
rs72961724	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961730	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961733	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961742	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72961752	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72965340	0.85[AFR][1000 genomes]
rs72965348	0.85[AFR][1000 genomes]
rs72965358	0.85[AFR][1000 genomes]
rs72965359	0.85[AFR][1000 genomes]
rs72965370	0.83[AFR][1000 genomes]
rs72965381	0.82[AFR][1000 genomes]
rs7618417	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	esv1818974	chr3:52966316-53096394	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52954000-53012200	Weak transcription	Esophagus	oesophagus
2	chr3:52954200-53012200	Weak transcription	Pancreas	Pancrea
3	chr3:52962400-52998200	Weak transcription	Lung	lung
4	chr3:52962400-53001600	Weak transcription	Brain Angular Gyrus	brain
5	chr3:52962400-53007000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:52962400-53012400	Weak transcription	Adipose Nuclei	Adipose
7	chr3:52964200-52995400	Weak transcription	Gastric	stomach
8	chr3:52964600-53012200	Weak transcription	Fetal Muscle Leg	muscle
9	chr3:52965000-52998400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:52965000-53039800	Weak transcription	Left Ventricle	heart
11	chr3:52965600-53008200	Weak transcription	GM12878-XiMat	blood
12	chr3:52966400-53001600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:52969000-53008000	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:52969200-52991000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr3:52969200-52996200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr3:52969200-52997400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr3:52975000-53008000	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:52975200-53000600	Weak transcription	Hela-S3	cervix
19	chr3:52977600-53017000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr3:52980400-52996600	Weak transcription	Psoas Muscle	Psoas
21	chr3:52984000-52998800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr3:52984400-53006000	Weak transcription	Fetal Heart	heart
23	chr3:52984600-53003000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr3:52986200-52993800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr3:52986400-53012200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr3:52986800-52993000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr3:52986800-52999000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr3:52986800-53001600	Weak transcription	Liver	Liver
29	chr3:52986800-53006200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:52987000-52991400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr3:52987000-53002000	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:52987000-53003200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr3:52987200-53017400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:52987400-52993000	Weak transcription	Primary B cells from cord blood	blood
35	chr3:52987400-52993400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr3:52987400-53002800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr3:52987400-53004600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr3:52987600-52998000	Weak transcription	Fetal Intestine Large	intestine
39	chr3:52987600-53003600	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr3:52987600-53005800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr3:52987600-53009400	Weak transcription	Placenta	Placenta
42	chr3:52987600-53014200	Weak transcription	Fetal Thymus	thymus
43	chr3:52987600-53014200	Weak transcription	Thymus	Thymus
44	chr3:52987800-52990200	Weak transcription	Primary B cells from peripheral blood	blood
45	chr3:52987800-52991200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr3:52987800-52995800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:52987800-53004600	Weak transcription	Fetal Muscle Trunk	muscle
48	chr3:52987800-53017000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr3:52987800-53017000	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr3:52988000-52997200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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