Variant report

Variant	rs10846839
Chromosome Location	chr12:122904459-122904460
allele	G/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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:122879571..122888507-chr12:122899670..122909196,27	K562	blood:
2	chr12:122882564..122887396-chr12:122904302..122908331,13	MCF-7	breast:
3	chr12:122819260..122821230-chr12:122903461..122905626,2	K562	blood:
4	chr12:122904060..122906537-chr12:122948950..122950891,2	MCF-7	breast:
5	chr12:122902575..122904900-chr12:122907634..122909136,2	MCF-7	breast:
6	chr12:122903628..122906130-chr12:122965497..122967386,2	K562	blood:
7	chr12:122877588..122886723-chr12:122904086..122910536,22	K562	blood:
8	chr12:122902285..122904972-chr12:122905751..122909798,4	K562	blood:
9	chr12:122902598..122904483-chr12:122905269..122908349,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000257097	Chromatin interaction
ENSG00000033030	Chromatin interaction
ENSG00000130779	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10846854	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10846879	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10846896	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11057562	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11057787	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11057801	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11057810	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11057832	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11057894	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11057934	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11058001	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058009	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11058010	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11058043	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058062	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11058064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058099	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058136	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11058143	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058144	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058159	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11058186	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11058206	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11058232	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11058237	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12229152	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12229345	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12424715	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12427143	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12427421	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2173581	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3817012	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4758661	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4758672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4758694	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4758697	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56861120	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56863652	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs58062133	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58766840	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58853108	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61954399	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs61954405	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61954416	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61954418	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61954421	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61954422	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61954424	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61954425	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61954427	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61954441	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61954442	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61954447	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61954450	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8181750	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs882969	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[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	nsv529868	chr12:121956483-122944265	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:122860600-122905000	Weak transcription	Brain Germinal Matrix	brain
2	chr12:122863800-122905000	Weak transcription	Dnd41	blood
3	chr12:122884600-122905200	Weak transcription	Colonic Mucosa	Colon
4	chr12:122885200-122904600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr12:122885200-122905200	Weak transcription	Fetal Muscle Trunk	muscle
6	chr12:122885200-122905400	Weak transcription	Fetal Thymus	thymus
7	chr12:122885200-122905400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr12:122885200-122906000	Weak transcription	Ovary	ovary
9	chr12:122885400-122905000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr12:122885600-122905400	Weak transcription	NH-A	brain
11	chr12:122886200-122905400	Weak transcription	Right Ventricle	heart
12	chr12:122887200-122906200	Weak transcription	Lung	lung
13	chr12:122887600-122904800	Weak transcription	HMEC	breast
14	chr12:122888800-122905000	Weak transcription	Esophagus	oesophagus
15	chr12:122889000-122904600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr12:122889000-122905000	Weak transcription	Fetal Muscle Leg	muscle
17	chr12:122890000-122905000	Weak transcription	Primary T cells from cord blood	blood
18	chr12:122891000-122905200	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr12:122892200-122904800	Weak transcription	Brain Angular Gyrus	brain
20	chr12:122892600-122905000	Weak transcription	Fetal Intestine Large	intestine
21	chr12:122895200-122905200	Weak transcription	Fetal Heart	heart
22	chr12:122896200-122904800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr12:122896200-122905000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr12:122896400-122905600	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr12:122897200-122905000	Weak transcription	Spleen	Spleen
26	chr12:122898000-122904800	Weak transcription	Stomach Smooth Muscle	stomach
27	chr12:122898000-122905000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr12:122898000-122905400	Weak transcription	Fetal Kidney	kidney
29	chr12:122898200-122905000	Weak transcription	Brain Substantia Nigra	brain
30	chr12:122898200-122905000	Weak transcription	Stomach Mucosa	stomach
31	chr12:122898200-122905000	Weak transcription	NHDF-Ad	bronchial
32	chr12:122898200-122905200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr12:122898200-122905600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr12:122898400-122904800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr12:122898600-122904600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr12:122898600-122904600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr12:122898600-122904800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr12:122898600-122904800	Weak transcription	Brain Hippocampus Middle	brain
39	chr12:122898600-122905000	Weak transcription	Adipose Nuclei	Adipose
40	chr12:122898600-122905000	Weak transcription	Brain Anterior Caudate	brain
41	chr12:122898600-122905000	Weak transcription	Fetal Brain Female	brain
42	chr12:122898600-122905400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr12:122898800-122904800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr12:122898800-122904800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr12:122898800-122905000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr12:122898800-122905000	Weak transcription	Fetal Brain Male	brain
47	chr12:122898800-122905200	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr12:122899000-122904600	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr12:122899000-122905000	Weak transcription	Primary B cells from cord blood	blood
50	chr12:122899000-122905200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links