Variant report

Variant	rs12354644
Chromosome Location	chr10:97923366-97923367
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97905460..97907764-chr10:97921809..97923534,2	K562	blood:
2	chr10:97922944..97925099-chr10:97927755..97929719,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCNJ-1	chr10:97920102-97923508	ENSG00000177853

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10491070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10509695	1.00[JPT][hapmap]
rs10509700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10509701	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10509703	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10882718	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10882723	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882728	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188575	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11188596	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11188604	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11188606	0.88[ASN][1000 genomes]
rs11188613	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs11188618	0.94[ASN][1000 genomes]
rs11188622	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188626	0.83[ASN][1000 genomes]
rs11188627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188631	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188632	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188635	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11188656	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11591374	0.95[YRI][hapmap]
rs11591959	1.00[JPT][hapmap]
rs11593049	1.00[CHB][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11595809	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11596126	0.95[YRI][hapmap]
rs11597197	0.94[ASN][1000 genomes]
rs11598546	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11598837	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11599170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11599662	0.95[YRI][hapmap]
rs12359842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12411569	1.00[JPT][hapmap]
rs12761705	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12768772	0.95[YRI][hapmap]
rs12771933	0.95[YRI][hapmap]
rs12778345	0.95[YRI][hapmap]
rs17382898	1.00[JPT][hapmap]
rs17383738	0.84[YRI][hapmap]
rs2039616	1.00[CHB][hapmap]
rs2125060	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3961944	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4344425	1.00[JPT][hapmap]
rs60450792	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7081169	0.86[YRI][hapmap]
rs7096164	0.95[YRI][hapmap]
rs713070	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7896077	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7916068	1.00[YRI][hapmap]

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97891000-97927000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr10:97892400-97924800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:97892800-97924200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr10:97912400-97927800	Weak transcription	Fetal Brain Male	brain
5	chr10:97913000-97925400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr10:97914200-97924800	Weak transcription	Fetal Intestine Small	intestine
7	chr10:97914200-97925600	Weak transcription	Fetal Stomach	stomach
8	chr10:97914200-97925800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:97914200-97926200	Weak transcription	Pancreas	Pancrea
10	chr10:97915400-97923400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:97917400-97928000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr10:97917600-97924800	Weak transcription	Small Intestine	intestine
13	chr10:97917600-97925200	Weak transcription	Fetal Brain Female	brain
14	chr10:97917600-97925800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:97918000-97923800	Weak transcription	HUVEC	blood vessel
16	chr10:97918000-97924200	Weak transcription	HSMM	muscle
17	chr10:97918000-97925400	Weak transcription	Brain Hippocampus Middle	brain
18	chr10:97918200-97924600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr10:97918200-97925400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr10:97918200-97925800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr10:97918200-97925800	Weak transcription	Osteobl	bone
22	chr10:97918200-97928000	Weak transcription	Thymus	Thymus
23	chr10:97918400-97930000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr10:97918600-97925400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:97918600-97925600	Weak transcription	NHEK	skin
26	chr10:97918600-97925800	Weak transcription	Primary B cells from peripheral blood	blood
27	chr10:97918600-97926200	Weak transcription	Left Ventricle	heart
28	chr10:97918600-97926400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr10:97918800-97923600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr10:97918800-97925800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr10:97918800-97926400	Weak transcription	Primary neutrophils fromperipheralblood	blood
32	chr10:97918800-97926600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:97918800-97928000	Weak transcription	A549	lung
34	chr10:97918800-97929400	Weak transcription	HepG2	liver
35	chr10:97919000-97925400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr10:97919200-97925800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr10:97919400-97924400	Weak transcription	GM12878-XiMat	blood
38	chr10:97919400-97925000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr10:97919400-97925000	Weak transcription	K562	blood
40	chr10:97919400-97925400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr10:97919400-97927400	Weak transcription	HSMMtube	muscle
42	chr10:97919600-97926800	Weak transcription	Fetal Thymus	thymus
43	chr10:97919600-97927400	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr10:97919600-97930000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr10:97919800-97925000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr10:97919800-97925400	Weak transcription	Dnd41	blood
47	chr10:97919800-97927200	Weak transcription	Fetal Muscle Trunk	muscle
48	chr10:97920000-97925400	Weak transcription	Primary T cells from cord blood	blood
49	chr10:97920200-97924600	Weak transcription	Primary monocytes fromperipheralblood	blood
50	chr10:97920200-97926600	Weak transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links