Variant report

Variant	rs11597728
Chromosome Location	chr10:27830456-27830457
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:27825533..27827174-chr10:27829360..27830870,2	MCF-7	breast:
2	chr10:27823448..27828239-chr10:27829759..27835759,6	K562	blood:
3	chr10:27814407..27819485-chr10:27827965..27831348,4	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RAB18-3	chr10:27829456-27831143	NONHSAT011910

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10741135	0.92[EUR][1000 genomes]
rs10764700	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10764701	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764703	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764704	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764705	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764706	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764707	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764708	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764709	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829263	0.95[EUR][1000 genomes]
rs10829269	1.00[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10829270	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829272	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829273	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829274	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829275	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015869	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1157735	0.95[EUR][1000 genomes]
rs11598268	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11812227	0.90[EUR][1000 genomes]
rs11818763	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1748482	0.84[EUR][1000 genomes]
rs2477329	0.95[EUR][1000 genomes]
rs2477334	0.97[EUR][1000 genomes]
rs2477337	0.97[EUR][1000 genomes]
rs2505300	0.95[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap]
rs2505308	0.87[ASN][1000 genomes]
rs2505331	0.95[EUR][1000 genomes]
rs34636144	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34696735	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34767495	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56851979	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs584807	0.84[EUR][1000 genomes]
rs587093	0.84[EUR][1000 genomes]
rs590990	0.84[EUR][1000 genomes]
rs592818	0.90[EUR][1000 genomes]
rs594953	0.81[EUR][1000 genomes]
rs599641	0.84[EUR][1000 genomes]
rs625446	0.89[EUR][1000 genomes]
rs627663	0.93[EUR][1000 genomes]
rs660053	0.89[EUR][1000 genomes]
rs66732057	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs671279	0.83[EUR][1000 genomes]
rs683321	0.80[EUR][1000 genomes]
rs7071295	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7074813	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7079708	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7090506	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7096275	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71487892	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72812124	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7899596	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7915734	0.92[EUR][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	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27794400-27837400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:27795800-27832600	Weak transcription	Small Intestine	intestine
3	chr10:27803400-27830800	Weak transcription	Hela-S3	cervix
4	chr10:27814200-27836000	Weak transcription	Brain Germinal Matrix	brain
5	chr10:27815000-27831000	Weak transcription	Fetal Heart	heart
6	chr10:27815000-27834400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr10:27815600-27831600	Weak transcription	Psoas Muscle	Psoas
8	chr10:27818800-27830800	Weak transcription	Stomach Mucosa	stomach
9	chr10:27820400-27835200	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr10:27822200-27835200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr10:27822400-27831600	Strong transcription	Osteobl	bone
12	chr10:27822400-27832000	Strong transcription	Primary B cells from peripheral blood	blood
13	chr10:27822600-27832400	Strong transcription	Adipose Nuclei	Adipose
14	chr10:27822600-27832400	Strong transcription	Dnd41	blood
15	chr10:27822600-27832800	Strong transcription	Primary neutrophils fromperipheralblood	blood
16	chr10:27823000-27836200	Weak transcription	Fetal Brain Female	brain
17	chr10:27823000-27838200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr10:27823400-27836600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr10:27823600-27831600	Weak transcription	HUVEC	blood vessel
20	chr10:27823600-27834800	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:27823600-27838200	Weak transcription	Pancreas	Pancrea
22	chr10:27823800-27830800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr10:27824000-27833800	Weak transcription	Brain Anterior Caudate	brain
24	chr10:27824400-27834000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr10:27824400-27835800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr10:27824400-27836200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr10:27824600-27831000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr10:27824600-27833400	Weak transcription	Brain Angular Gyrus	brain
29	chr10:27824600-27834400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr10:27824600-27835200	Weak transcription	Colonic Mucosa	Colon
31	chr10:27824600-27836000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:27824600-27836400	Weak transcription	Fetal Kidney	kidney
33	chr10:27824600-27838000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr10:27824800-27836600	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr10:27825000-27836600	Weak transcription	Gastric	stomach
36	chr10:27825600-27831000	Weak transcription	Fetal Intestine Small	intestine
37	chr10:27825600-27831800	Weak transcription	Fetal Stomach	stomach
38	chr10:27825600-27834200	Weak transcription	Lung	lung
39	chr10:27825600-27835200	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr10:27825800-27831600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr10:27825800-27834600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr10:27826000-27831400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr10:27826200-27831600	Weak transcription	Esophagus	oesophagus
44	chr10:27826200-27833400	Weak transcription	Brain Hippocampus Middle	brain
45	chr10:27826200-27834200	Weak transcription	Right Ventricle	heart
46	chr10:27826200-27835200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr10:27826200-27836600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr10:27826200-27838000	Weak transcription	Ovary	ovary
49	chr10:27826400-27830600	Weak transcription	Fetal Muscle Leg	muscle
50	chr10:27826400-27836400	Weak transcription	A549	lung

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