Variant report

Variant	rs7131912
Chromosome Location	chr12:106496947-106496948
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCP11L2-2	chr12:106496941-106497156	ENSG00000257438.1

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10746055	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10861555	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112867	0.94[CHB][hapmap]
rs11112868	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112870	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11112872	0.85[CHB][hapmap]
rs12371401	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1427785	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1427786	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1560000	0.96[CEU][hapmap];0.95[CHB][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2434082	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2436597	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2436598	0.83[ASN][1000 genomes]
rs2468198	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2468199	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2569973	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2956406	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7132167	0.85[CEU][hapmap]
rs754724	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7964234	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs958422	0.86[ASN][1000 genomes]
rs967872	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[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	nsv832509	chr12:106363888-106516221	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:106458800-106500200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr12:106461800-106499600	Weak transcription	Fetal Intestine Large	intestine
3	chr12:106469000-106499400	Weak transcription	Fetal Intestine Small	intestine
4	chr12:106485200-106500400	Weak transcription	HMEC	breast
5	chr12:106485400-106500800	Weak transcription	Lung	lung
6	chr12:106485600-106500600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr12:106487400-106499400	Weak transcription	Brain Germinal Matrix	brain
8	chr12:106487600-106500200	Weak transcription	NHLF	lung
9	chr12:106490600-106498200	Weak transcription	Pancreas	Pancrea
10	chr12:106490800-106499600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr12:106491000-106499600	Weak transcription	Fetal Kidney	kidney
12	chr12:106491200-106499800	Strong transcription	HSMM	muscle
13	chr12:106491200-106500000	Weak transcription	Fetal Lung	lung
14	chr12:106491200-106500800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr12:106491400-106499600	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr12:106491600-106497200	Strong transcription	Osteobl	bone
17	chr12:106491600-106497600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr12:106491800-106499600	Weak transcription	Ovary	ovary
19	chr12:106491800-106500400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr12:106492000-106498200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr12:106492000-106504400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr12:106492600-106497400	Weak transcription	Psoas Muscle	Psoas
23	chr12:106492600-106499600	Weak transcription	Fetal Brain Male	brain
24	chr12:106492600-106500600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr12:106492600-106500800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr12:106492800-106500000	Weak transcription	NHEK	skin
27	chr12:106492800-106500600	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr12:106493200-106499600	Weak transcription	Brain Anterior Caudate	brain
29	chr12:106493200-106500000	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr12:106493400-106499200	Weak transcription	Brain Substantia Nigra	brain
31	chr12:106493400-106499600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr12:106493400-106499800	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr12:106493400-106500000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr12:106493400-106500200	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr12:106493400-106500200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr12:106493400-106500200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr12:106493400-106512400	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr12:106493600-106499400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr12:106493600-106500000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr12:106493600-106500200	Weak transcription	Liver	Liver
41	chr12:106494400-106497000	Strong transcription	Fetal Brain Female	brain
42	chr12:106494400-106497200	Strong transcription	A549	lung
43	chr12:106494400-106500400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr12:106494400-106500800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr12:106494600-106497200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr12:106494600-106497400	Enhancers	Right Atrium	heart
47	chr12:106494600-106498600	Strong transcription	Fetal Muscle Trunk	muscle
48	chr12:106494800-106497000	Strong transcription	Fetal Stomach	stomach
49	chr12:106494800-106497200	Enhancers	Left Ventricle	heart
50	chr12:106494800-106497600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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