Variant report

Variant	rs61846907
Chromosome Location	chr10:25971919-25971920
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:25369667..25370602-chr10:25971300..25972009,2	MCF-7	breast:
2	chr10:25515615..25516464-chr10:25970963..25971954,2	MCF-7	breast:
3	chr10:25928319..25929283-chr10:25971291..25972141,2	MCF-7	breast:
4	chr10:25401853..25402699-chr10:25971177..25972164,3	MCF-7	breast:
5	chr10:25928110..25928805-chr10:25971297..25972199,3	MCF-7	breast:
6	chr10:25968329..25970638-chr10:25971632..25973181,2	MCF-7	breast:
7	chr10:25948946..25949616-chr10:25971487..25972147,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GPR158-2	chr10:25971450-25972314	NR_108069

No data

Variant related genes	Relation type
ENSG00000231422	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10828844	1.00[ASN][1000 genomes]
rs10828845	0.95[ASN][1000 genomes]
rs10828846	0.95[ASN][1000 genomes]
rs10828847	0.95[ASN][1000 genomes]
rs16926240	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16926262	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16926264	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17737307	0.90[ASN][1000 genomes]
rs2367979	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4749059	1.00[ASN][1000 genomes]
rs55752620	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61613087	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61846904	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61846908	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62000980	0.93[ASN][1000 genomes]
rs6482509	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7070879	0.84[AFR][1000 genomes]
rs7076933	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7080019	0.95[ASN][1000 genomes]
rs7094086	0.83[AFR][1000 genomes]
rs7095138	0.81[AFR][1000 genomes]
rs7098875	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7099100	0.87[AFR][1000 genomes]
rs7099373	0.95[ASN][1000 genomes]
rs72796368	0.98[ASN][1000 genomes]
rs72796380	0.98[ASN][1000 genomes]
rs73610338	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7906914	0.84[AFR][1000 genomes]
rs7916640	0.92[ASN][1000 genomes]
rs9664692	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[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	nsv1044482	chr10:25889919-25977270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25962800-25993600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:25970800-25972000	Enhancers	Fetal Muscle Leg	muscle
3	chr10:25970800-25972400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:25971200-25972000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:25971200-25972000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr10:25971200-25972000	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr10:25971200-25972000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:25971200-25972000	Active TSS	Brain Angular Gyrus	brain
9	chr10:25971200-25972200	Enhancers	Fetal Heart	heart
10	chr10:25971400-25972000	Enhancers	Aorta	Aorta
11	chr10:25971400-25972000	Active TSS	Brain Hippocampus Middle	brain
12	chr10:25971400-25972000	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr10:25971600-25972000	Enhancers	Fetal Stomach	stomach
14	chr10:25971600-25972000	Enhancers	Right Atrium	heart
15	chr10:25971800-25972000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:25971800-25972000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr10:25971800-25972000	Enhancers	Adipose Nuclei	Adipose
18	chr10:25971800-25972000	Flanking Active TSS	Brain Anterior Caudate	brain
19	chr10:25971800-25972000	Flanking Active TSS	Brain Cingulate Gyrus	brain
20	chr10:25971800-25972000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
21	chr10:25971800-25972000	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
22	chr10:25971800-25972000	Flanking Active TSS	Brain Substantia Nigra	brain
23	chr10:25971800-25972000	Enhancers	Fetal Kidney	kidney
24	chr10:25971800-25972000	Active TSS	Skeletal Muscle Male	skeletal muscle
25	chr10:25971800-25972000	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr10:25971800-25972000	Active TSS	Stomach Smooth Muscle	stomach
27	chr10:25971800-25972200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr10:25971800-25972200	Enhancers	Pancreatic Islets	Pancreatic Islet
29	chr10:25971800-25972400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr10:25971800-25972400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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