Variant report

Variant	rs7805419
Chromosome Location	chr7:12282451-12282452
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs1019307	0.88[EUR][1000 genomes]
rs1019309	0.90[EUR][1000 genomes]
rs1020006	0.93[EUR][1000 genomes]
rs10234805	0.91[EUR][1000 genomes]
rs10278257	0.91[EUR][1000 genomes]
rs10281425	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1042949	0.97[EUR][1000 genomes]
rs1054168	0.97[EUR][1000 genomes]
rs1054169	0.97[EUR][1000 genomes]
rs1060700	0.80[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs10950391	0.93[EUR][1000 genomes]
rs10950392	0.93[EUR][1000 genomes]
rs10950393	0.93[EUR][1000 genomes]
rs10950394	0.94[EUR][1000 genomes]
rs10950395	0.95[EUR][1000 genomes]
rs10950396	0.94[EUR][1000 genomes]
rs10950397	0.88[EUR][1000 genomes]
rs10950398	0.87[EUR][1000 genomes]
rs11971133	0.93[EUR][1000 genomes]
rs11974304	0.93[EUR][1000 genomes]
rs11974335	0.94[EUR][1000 genomes]
rs12667950	0.97[EUR][1000 genomes]
rs12668625	0.98[EUR][1000 genomes]
rs12669919	0.97[EUR][1000 genomes]
rs12699323	0.91[EUR][1000 genomes]
rs12699324	0.91[EUR][1000 genomes]
rs12699332	0.98[EUR][1000 genomes]
rs12699333	0.98[EUR][1000 genomes]
rs12699338	0.96[EUR][1000 genomes]
rs13229988	0.96[EUR][1000 genomes]
rs13230513	0.97[EUR][1000 genomes]
rs13237518	0.97[EUR][1000 genomes]
rs13237715	0.97[EUR][1000 genomes]
rs1435524	0.91[EUR][1000 genomes]
rs1435525	0.93[EUR][1000 genomes]
rs1435527	0.93[EUR][1000 genomes]
rs1468801	0.81[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs1468802	0.81[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs1468803	0.80[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs1468804	0.80[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs1548884	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1990620	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1990621	0.85[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs1990622	0.88[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2043539	0.91[EUR][1000 genomes]
rs2302633	0.98[EUR][1000 genomes]
rs2302634	0.98[EUR][1000 genomes]
rs2302635	0.98[EUR][1000 genomes]
rs2356065	0.83[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs28549831	0.97[EUR][1000 genomes]
rs3173615	0.98[EUR][1000 genomes]
rs34150432	0.95[EUR][1000 genomes]
rs3800841	0.97[EUR][1000 genomes]
rs3800843	0.95[EUR][1000 genomes]
rs3800847	0.92[EUR][1000 genomes]
rs3807865	0.86[EUR][1000 genomes]
rs3807866	0.86[EUR][1000 genomes]
rs3815535	0.98[EUR][1000 genomes]
rs3823612	0.93[EUR][1000 genomes]
rs4721057	0.95[EUR][1000 genomes]
rs4721058	0.95[EUR][1000 genomes]
rs4721059	0.95[EUR][1000 genomes]
rs4721060	0.97[EUR][1000 genomes]
rs4721061	0.95[EUR][1000 genomes]
rs4721064	0.97[EUR][1000 genomes]
rs5011431	0.97[EUR][1000 genomes]
rs5011432	0.96[EUR][1000 genomes]
rs5011434	0.97[EUR][1000 genomes]
rs5011436	0.95[EUR][1000 genomes]
rs5011438	0.97[EUR][1000 genomes]
rs5011439	0.97[EUR][1000 genomes]
rs6460895	0.90[EUR][1000 genomes]
rs6460896	0.90[EUR][1000 genomes]
rs6460897	0.90[EUR][1000 genomes]
rs6460898	0.90[EUR][1000 genomes]
rs6460899	0.91[EUR][1000 genomes]
rs6460900	0.91[EUR][1000 genomes]
rs6460901	0.91[EUR][1000 genomes]
rs6460902	0.92[EUR][1000 genomes]
rs6460905	0.88[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs6460906	0.88[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs6943125	0.80[ASN][1000 genomes]
rs6948844	0.94[EUR][1000 genomes]
rs6966757	0.95[EUR][1000 genomes]
rs6966915	0.97[EUR][1000 genomes]
rs7781670	0.90[EUR][1000 genomes]
rs7785087	0.93[EUR][1000 genomes]
rs7785189	0.91[EUR][1000 genomes]
rs7791726	0.81[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs7792410	0.97[EUR][1000 genomes]
rs7797705	0.98[EUR][1000 genomes]
rs7804234	0.95[EUR][1000 genomes]
rs7804433	0.94[EUR][1000 genomes]
rs7804736	0.95[EUR][1000 genomes]
rs7809700	0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606199	chr7:11506143-12486659	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv534432	chr7:12148960-12693032	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1024554	chr7:12214722-12967418	Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv538735	chr7:12214722-12967418	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7805419	TMEM106B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:12252000-12285400	Weak transcription	Spleen	Spleen
2	chr7:12252400-12284000	Weak transcription	Fetal Intestine Small	intestine
3	chr7:12259800-12283600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr7:12270000-12284400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr7:12271800-12289000	Weak transcription	HSMM	muscle
6	chr7:12278000-12283800	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr7:12278600-12284600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr7:12278800-12283600	Weak transcription	A549	lung
9	chr7:12279000-12284400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr7:12279800-12283600	Weak transcription	Liver	Liver
11	chr7:12280000-12295000	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links