Variant report

Variant	rs1896560
Chromosome Location	chr3:141254011-141254012
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141247002..141250930-chr3:141252539..141256431,5	K562	blood:
2	chr3:141248511..141250930-chr3:141251696..141254243,2	K562	blood:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs12107989	0.86[AFR][1000 genomes]
rs16851476	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3172392	0.88[AFR][1000 genomes]
rs4404426	0.87[AFR][1000 genomes]
rs57675002	1.00[AMR][1000 genomes]
rs58702858	1.00[AMR][1000 genomes]
rs6775251	0.98[AFR][1000 genomes]
rs6778604	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6796230	0.88[AFR][1000 genomes]
rs7640498	0.98[AFR][1000 genomes]
rs7645077	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7647014	0.86[AFR][1000 genomes];1.00[AMR][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	nsv1006237	chr3:141227525-141300722	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1014365	chr3:141235379-141282615	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	3 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	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
2	chr3:141217800-141258400	Weak transcription	Psoas Muscle	Psoas
3	chr3:141226600-141254400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:141229400-141267400	Weak transcription	Fetal Heart	heart
5	chr3:141230000-141259800	Weak transcription	Small Intestine	intestine
6	chr3:141231600-141254400	Weak transcription	Fetal Kidney	kidney
7	chr3:141231600-141263600	Weak transcription	Fetal Brain Male	brain
8	chr3:141232200-141254400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:141234000-141254400	Weak transcription	Right Ventricle	heart
10	chr3:141236200-141281600	Weak transcription	Colon Smooth Muscle	Colon
11	chr3:141236400-141254400	Weak transcription	Brain Angular Gyrus	brain
12	chr3:141236400-141254400	Weak transcription	Left Ventricle	heart
13	chr3:141236400-141276000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr3:141236400-141301000	Weak transcription	Brain Substantia Nigra	brain
15	chr3:141236400-141306600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:141236600-141254400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr3:141236600-141254400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:141236600-141254400	Weak transcription	Esophagus	oesophagus
19	chr3:141236600-141263200	Weak transcription	Brain Germinal Matrix	brain
20	chr3:141236600-141275800	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr3:141236600-141297000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr3:141236600-141299400	Weak transcription	Gastric	stomach
23	chr3:141237000-141265400	Weak transcription	Brain Hippocampus Middle	brain
24	chr3:141237000-141299400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr3:141239400-141254400	Weak transcription	Placenta	Placenta
26	chr3:141240200-141254400	Weak transcription	K562	blood
27	chr3:141241800-141263600	Weak transcription	Fetal Brain Female	brain
28	chr3:141242200-141263600	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:141242200-141274800	Weak transcription	Lung	lung
30	chr3:141243200-141254400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr3:141243200-141254400	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr3:141243200-141254400	Weak transcription	Fetal Stomach	stomach
33	chr3:141243400-141254400	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:141243400-141254400	Weak transcription	Ovary	ovary
35	chr3:141243400-141254400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:141243400-141254400	Weak transcription	Thymus	Thymus
37	chr3:141243400-141299400	Weak transcription	Spleen	Spleen
38	chr3:141243600-141263600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr3:141244600-141254400	Weak transcription	Fetal Intestine Small	intestine
40	chr3:141244600-141254600	Weak transcription	Fetal Muscle Leg	muscle
41	chr3:141245200-141254400	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr3:141245600-141254200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr3:141246000-141254400	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr3:141246000-141278400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr3:141247400-141254400	Strong transcription	Dnd41	blood
46	chr3:141249200-141254400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr3:141249200-141257200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr3:141249200-141258200	Weak transcription	Brain Anterior Caudate	brain
49	chr3:141249200-141274600	Weak transcription	Liver	Liver
50	chr3:141249800-141254200	Weak transcription	A549	lung

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