Variant report

Variant	rs10861370
Chromosome Location	chr12:105672608-105672609
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:105669318..105671725-chr12:105671991..105674954,2	K562	blood:
2	chr12:105670361..105673548-chr12:105673621..105675351,3	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10459165	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10778377	0.91[ASN][1000 genomes]
rs10778378	0.91[ASN][1000 genomes]
rs10778379	0.91[ASN][1000 genomes]
rs10861363	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10861367	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10861372	0.91[ASN][1000 genomes]
rs10861373	0.91[ASN][1000 genomes]
rs10861374	0.91[ASN][1000 genomes]
rs10861375	0.90[ASN][1000 genomes]
rs10861376	0.92[ASN][1000 genomes]
rs10861379	0.91[ASN][1000 genomes]
rs10861380	0.89[ASN][1000 genomes]
rs11112433	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11112440	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11112442	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112443	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11112444	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11112446	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11112447	0.91[ASN][1000 genomes]
rs11112449	0.91[ASN][1000 genomes]
rs11112450	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12227922	0.89[ASN][1000 genomes]
rs12228258	0.91[ASN][1000 genomes]
rs12424651	0.89[ASN][1000 genomes]
rs12578428	0.91[ASN][1000 genomes]
rs12578730	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12579536	0.82[ASN][1000 genomes]
rs12579816	0.91[ASN][1000 genomes]
rs12580027	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12582119	0.91[ASN][1000 genomes]
rs12582382	0.91[ASN][1000 genomes]
rs12582412	0.91[ASN][1000 genomes]
rs12819795	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4337137	0.93[ASN][1000 genomes]
rs4578495	0.89[ASN][1000 genomes]
rs4964129	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4964347	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4964349	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4964351	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4964352	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4964353	0.97[ASN][1000 genomes]
rs4964354	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7132894	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7132958	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7295178	0.91[ASN][1000 genomes]
rs7299570	0.89[ASN][1000 genomes]
rs7300350	0.91[ASN][1000 genomes]
rs7308679	0.91[ASN][1000 genomes]
rs73181849	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7484699	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7485511	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7485535	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7487098	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][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	nsv899499	chr12:105616297-105722529	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1044450	chr12:105668451-105682822	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv510589	chr12:105670071-105743755	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10861370	LOC440934	trans	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:105665000-105674200	Weak transcription	Osteobl	bone
2	chr12:105665600-105674800	Weak transcription	NHDF-Ad	bronchial
3	chr12:105668200-105674800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr12:105668600-105673400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr12:105670400-105674600	Weak transcription	NHEK	skin
6	chr12:105670400-105674800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr12:105670600-105675000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr12:105670600-105675000	Weak transcription	HMEC	breast
9	chr12:105671200-105673200	Enhancers	Fetal Intestine Large	intestine
10	chr12:105671400-105673800	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr12:105671800-105672800	Enhancers	Fetal Intestine Small	intestine
12	chr12:105671800-105672800	Enhancers	HepG2	liver
13	chr12:105672000-105672800	Enhancers	Stomach Mucosa	stomach
14	chr12:105672400-105673400	Weak transcription	Gastric	stomach
15	chr12:105672400-105673400	Weak transcription	Pancreas	Pancrea
16	chr12:105672400-105673400	Weak transcription	NHLF	lung
17	chr12:105672600-105673000	Weak transcription	A549	lung

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