Variant report

Variant	rs1409306
Chromosome Location	chr10:25205965-25205966
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:25187374..25189761-chr10:25204775..25206838,2	K562	blood:
2	chr10:25202011..25203828-chr10:25205490..25208342,2	MCF-7	breast:
3	chr10:25203680..25206152-chr10:25240031..25243689,4	K562	blood:
4	chr10:25196233..25201020-chr10:25203548..25208344,7	K562	blood:

Variant related genes	Relation type
ENSG00000099256	Chromatin interaction
ENSG00000273107	Chromatin interaction
ENSG00000240294	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10828735	1.00[JPT][hapmap]
rs11014282	0.83[ASN][1000 genomes]
rs11014306	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014307	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014308	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11014309	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12255703	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12256206	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12257709	0.83[ASN][1000 genomes]
rs16925135	0.83[ASN][1000 genomes]
rs16925138	0.83[ASN][1000 genomes]
rs16925145	1.00[CEU][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]
rs2220708	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs4504964	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57654443	1.00[ASN][1000 genomes]
rs57681668	0.83[ASN][1000 genomes]
rs59876862	1.00[ASN][1000 genomes]
rs61854283	0.83[ASN][1000 genomes]
rs6482453	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6482454	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482455	1.00[CEU][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]
rs6482465	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7072126	0.81[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7075926	1.00[ASN][1000 genomes]
rs7078660	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080496	0.83[ASN][1000 genomes]
rs7084900	1.00[CEU][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]
rs7087994	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs7100005	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs729141	1.00[JPT][hapmap]
rs73606586	1.00[ASN][1000 genomes]
rs73606590	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73606602	1.00[ASN][1000 genomes]
rs73608205	1.00[ASN][1000 genomes]
rs7905478	1.00[ASN][1000 genomes]
rs7910241	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918015	1.00[CEU][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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	nsv1053278	chr10:25140776-25269093	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25191600-25240600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:25193400-25210200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr10:25195400-25223400	Weak transcription	Fetal Brain Female	brain
4	chr10:25196400-25212000	Weak transcription	Fetal Stomach	stomach
5	chr10:25198200-25228000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:25198400-25217800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr10:25199000-25210200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:25199200-25210000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:25201200-25210200	Weak transcription	Right Atrium	heart
10	chr10:25201400-25210200	Weak transcription	Primary T cells fromperipheralblood	blood
11	chr10:25202000-25210000	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr10:25202000-25210200	Weak transcription	Left Ventricle	heart
13	chr10:25202200-25210200	Weak transcription	Small Intestine	intestine
14	chr10:25202400-25218000	Weak transcription	Fetal Lung	lung
15	chr10:25202800-25210000	Weak transcription	Stomach Mucosa	stomach
16	chr10:25204000-25207200	Enhancers	K562	blood
17	chr10:25204800-25206800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr10:25204800-25209800	Weak transcription	Brain Angular Gyrus	brain
19	chr10:25204800-25209800	Weak transcription	Brain Cingulate Gyrus	brain
20	chr10:25204800-25209800	Weak transcription	Brain Substantia Nigra	brain
21	chr10:25204800-25210000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr10:25204800-25210200	Weak transcription	Aorta	Aorta
23	chr10:25205000-25209800	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:25205000-25210000	Weak transcription	Brain Anterior Caudate	brain
25	chr10:25205000-25210000	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr10:25205200-25210200	Weak transcription	Ovary	ovary
27	chr10:25205400-25206200	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr10:25205400-25208800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr10:25205400-25209200	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr10:25205400-25209400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr10:25205400-25211800	Weak transcription	Fetal Intestine Small	intestine
32	chr10:25205600-25206200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr10:25205600-25209400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr10:25205600-25209400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
35	chr10:25205800-25208200	Weak transcription	Fetal Intestine Large	intestine

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