Variant report

Variant	rs7542776
Chromosome Location	chr1:151435159-151435160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	1:151411623-151426875..1:151434310-151436817	Hela-S3	cervix:
2	chr1:151427202..151436068-chr1:151477865..151490153,60	MCF-7	breast:
3	1:151434310-151436817..1:151618750-151636526	K562	blood:
4	1:151434310-151436817..1:151516085-151535167	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000143375	Chromatin interaction
ENSG00000143367	Chromatin interaction
ENSG00000143376	Chromatin interaction
ENSG00000143442	Chromatin interaction
ENSG00000223861	Chromatin interaction
ENSG00000207606	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10736380	0.86[EUR][1000 genomes]
rs10749662	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11204807	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11204808	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11204809	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11204811	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11204815	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11204819	0.90[EUR][1000 genomes]
rs11204824	0.89[EUR][1000 genomes]
rs11578888	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11583968	0.90[EUR][1000 genomes]
rs11584694	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11589645	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11801791	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12025432	0.88[EUR][1000 genomes]
rs12029691	0.86[EUR][1000 genomes]
rs12044242	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12047617	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12068166	0.86[EUR][1000 genomes]
rs12068368	0.88[EUR][1000 genomes]
rs12071705	0.88[EUR][1000 genomes]
rs12120726	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12125310	0.87[EUR][1000 genomes]
rs12740875	0.88[EUR][1000 genomes]
rs12751531	0.88[EUR][1000 genomes]
rs1342929	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1887544	0.86[EUR][1000 genomes]
rs1887545	0.86[EUR][1000 genomes]
rs2274533	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2274534	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2274535	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2479379	0.86[EUR][1000 genomes]
rs2479385	0.86[EUR][1000 genomes]
rs2495380	0.86[EUR][1000 genomes]
rs2864122	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3118720	0.86[EUR][1000 genomes]
rs34884031	0.87[EUR][1000 genomes]
rs3748550	0.86[EUR][1000 genomes]
rs3976737	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4246526	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4246527	0.88[EUR][1000 genomes]
rs4364884	0.90[EUR][1000 genomes]
rs4528122	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4603	0.86[EUR][1000 genomes]
rs4971040	0.83[AMR][1000 genomes]
rs4971042	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4971043	0.86[EUR][1000 genomes]
rs4971049	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61818036	0.82[AMR][1000 genomes]
rs61818037	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61818039	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6587572	0.86[EUR][1000 genomes]
rs6587573	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6587577	0.88[EUR][1000 genomes]
rs6587584	0.90[EUR][1000 genomes]
rs6587585	0.89[EUR][1000 genomes]
rs6684333	0.90[EUR][1000 genomes]
rs6689436	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7172	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7546151	0.88[EUR][1000 genomes]
rs7546933	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases
2	nsv831581	chr1:151289151-151478605	Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7542776	SELENBP1	cis	Thyroid	GTEx

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151431000-151445000	Weak transcription	Spleen	Spleen
2	chr1:151432400-151437800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:151432600-151436400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr1:151432600-151436800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr1:151432600-151445000	Weak transcription	Fetal Intestine Small	intestine
6	chr1:151432600-151445000	Weak transcription	Pancreas	Pancrea
7	chr1:151434600-151435200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr1:151435000-151435200	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links