Variant report

Variant	rs10914141
Chromosome Location	chr1:171947316-171947317
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10737340	0.80[CEU][hapmap]
rs12120554	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12121064	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12122025	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12123334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12125022	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12135615	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12136630	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12137105	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140603	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs12144607	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12145177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16843855	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs16843860	1.00[JPT][hapmap]
rs17277008	1.00[JPT][hapmap]
rs17346438	1.00[JPT][hapmap]
rs17346452	1.00[JPT][hapmap]
rs17346473	1.00[JPT][hapmap]
rs17350544	1.00[JPT][hapmap]
rs17350579	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs17350586	1.00[JPT][hapmap]
rs17361789	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs17472925	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4540689	1.00[JPT][hapmap]
rs61805811	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61805813	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61805815	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61805816	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61805845	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6673009	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[GIH][hapmap];0.81[TSI][hapmap]
rs6684723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6691703	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6694089	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7543247	1.00[CHB][hapmap]

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	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv831893	chr1:171802450-171985000	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv532342	chr1:171922237-172133785	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10914141	ILDR2	cis	parietal	SCAN
rs10914141	SERPINC1	cis	cerebellum	SCAN
rs10914141	BRP44	cis	parietal	SCAN
rs10914141	FMO9P	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171936600-171948600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr1:171937400-171958000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:171937800-171947400	Weak transcription	Brain Substantia Nigra	brain
4	chr1:171941800-171954600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr1:171942600-171948600	Weak transcription	Brain Hippocampus Middle	brain
6	chr1:171946800-171949200	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr1:171947200-171948600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links