Variant report

Variant	rs13099945
Chromosome Location	chr3:141232186-141232187
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141218042..141219616-chr3:141230840..141232406,2	K562	blood:
2	chr3:141204659..141211656-chr3:141222227..141233100,16	K562	blood:
3	chr3:141205880..141208279-chr3:141231389..141233100,2	K562	blood:
4	chr3:141232140..141234840-chr3:141247609..141249349,2	K562	blood:

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1077181	0.88[CEU][hapmap]
rs11557453	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11707656	0.85[EUR][1000 genomes]
rs11708253	0.83[EUR][1000 genomes]
rs11709875	0.92[CEU][hapmap]
rs11711318	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11713714	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11714208	0.92[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11716776	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11717144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11717842	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12695734	0.83[EUR][1000 genomes]
rs12695735	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs12695736	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12695740	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12695741	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12695743	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13062809	0.87[ASN][1000 genomes]
rs13067519	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13068454	0.80[EUR][1000 genomes]
rs13072100	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs13078872	0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13083593	0.96[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13084444	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13088429	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs13095168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1863870	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2312194	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34317570	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34342794	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732872	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3806647	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4334619	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6769161	1.00[JPT][hapmap]
rs71619392	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs720663	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7624941	1.00[JPT][hapmap]
rs7649666	1.00[JPT][hapmap]
rs7651511	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9289629	0.96[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9289634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9808953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9822575	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9823528	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9829588	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9830055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9833121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9836050	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9836818	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9837202	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9838230	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838419	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9840159	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9840697	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843866	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9849180	0.96[CEU][hapmap];0.82[YRI][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9850416	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9851256	1.00[CHB][hapmap]
rs9865971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9870749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9873042	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141207000-141235800	Weak transcription	Gastric	stomach
2	chr3:141207000-141255000	Weak transcription	Aorta	Aorta
3	chr3:141207800-141233200	Weak transcription	Fetal Intestine Large	intestine
4	chr3:141207800-141235600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:141208400-141232600	Weak transcription	NH-A	brain
6	chr3:141209600-141232400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:141209800-141234200	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:141210400-141248000	Weak transcription	NHLF	lung
9	chr3:141211400-141235400	Weak transcription	A549	lung
10	chr3:141216000-141239600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:141217800-141235800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr3:141217800-141258400	Weak transcription	Psoas Muscle	Psoas
13	chr3:141218000-141232400	Weak transcription	HUVEC	blood vessel
14	chr3:141218000-141235400	Weak transcription	NHEK	skin
15	chr3:141218200-141233000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr3:141218200-141235600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:141218400-141233200	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:141218400-141233400	Weak transcription	HMEC	breast
19	chr3:141218600-141235400	Weak transcription	Brain Germinal Matrix	brain
20	chr3:141218800-141235600	Weak transcription	Left Ventricle	heart
21	chr3:141219000-141233000	Weak transcription	GM12878-XiMat	blood
22	chr3:141219000-141233200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr3:141219000-141235200	Weak transcription	Hela-S3	cervix
24	chr3:141219000-141235400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr3:141219000-141235600	Weak transcription	Fetal Intestine Small	intestine
26	chr3:141219200-141235200	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr3:141221000-141235600	Weak transcription	Fetal Muscle Trunk	muscle
28	chr3:141221200-141235400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr3:141221400-141232400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr3:141221400-141235000	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr3:141221600-141235600	Weak transcription	Fetal Stomach	stomach
32	chr3:141221800-141235400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr3:141222400-141233200	Weak transcription	Rectal Mucosa Donor 29	rectum
34	chr3:141224600-141233400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr3:141225200-141232400	Weak transcription	HSMM	muscle
36	chr3:141225400-141232800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr3:141225600-141233200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr3:141226200-141235600	Weak transcription	Thymus	Thymus
39	chr3:141226400-141235200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:141226400-141235400	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr3:141226600-141232600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:141226600-141235600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:141226600-141235600	Weak transcription	Pancreas	Pancrea
44	chr3:141226600-141235600	Weak transcription	Sigmoid Colon	Sigmoid Colon
45	chr3:141226600-141235800	Weak transcription	Brain Angular Gyrus	brain
46	chr3:141226600-141236200	Weak transcription	Brain Substantia Nigra	brain
47	chr3:141226600-141254400	Weak transcription	Brain Cingulate Gyrus	brain
48	chr3:141226800-141232800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:141226800-141233000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr3:141226800-141233200	Weak transcription	H1 Cell Line	embryonic stem cell

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