Variant report

Variant	rs10919168
Chromosome Location	chr1:169394226-169394227
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:169390021..169391696-chr1:169393903..169395774,2	K562	blood:
2	chr1:169387105..169389655-chr1:169393151..169396030,2	K562	blood:

Extended variants
information (count: 56 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10429893	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs10465575	0.81[ASN][1000 genomes]
rs10465576	0.81[ASN][1000 genomes]
rs10489189	0.81[ASN][1000 genomes]
rs10732287	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs10800424	0.82[JPT][hapmap]
rs10800425	0.82[JPT][hapmap]
rs10800435	0.82[JPT][hapmap]
rs10800438	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs10800440	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs10800447	0.88[CEU][hapmap];0.84[TSI][hapmap]
rs10919124	0.82[JPT][hapmap]
rs10919173	0.88[CEU][hapmap]
rs10919174	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1124843	0.81[ASN][1000 genomes]
rs1133814	0.81[ASN][1000 genomes]
rs12029566	0.81[ASN][1000 genomes]
rs1208134	1.00[ASN][1000 genomes]
rs1208135	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1208327	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1400836	0.87[CHD][hapmap];0.82[JPT][hapmap];0.84[MKK][hapmap];0.82[YRI][hapmap];0.81[ASN][1000 genomes]
rs1517744	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1517745	0.84[CEU][hapmap];0.84[TSI][hapmap]
rs1517747	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1591733	0.87[CHD][hapmap];0.82[JPT][hapmap]
rs1856303	0.82[JPT][hapmap]
rs1914505	0.81[ASN][1000 genomes]
rs1983546	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2003653	0.81[ASN][1000 genomes]
rs2037250	0.87[CHD][hapmap];0.82[JPT][hapmap]
rs2138898	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs2176473	0.87[CHD][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs3766095	0.82[JPT][hapmap];0.82[YRI][hapmap]
rs3820059	0.81[ASN][1000 genomes]
rs3905328	0.87[CHD][hapmap];0.82[JPT][hapmap];0.84[MKK][hapmap];0.82[YRI][hapmap];0.81[ASN][1000 genomes]
rs4264046	0.82[JPT][hapmap]
rs4656183	0.82[JPT][hapmap];0.82[YRI][hapmap];0.81[ASN][1000 genomes]
rs4656672	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs6427185	0.87[CHD][hapmap];0.82[JPT][hapmap];0.84[MKK][hapmap];0.82[YRI][hapmap]
rs6427187	0.81[ASN][1000 genomes]
rs6656822	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6669901	0.81[ASN][1000 genomes]
rs6672589	0.88[CEU][hapmap]
rs6700375	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7415756	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs7521582	0.87[CHD][hapmap]
rs7524348	0.88[CEU][hapmap]
rs7533257	0.87[CHD][hapmap];0.82[JPT][hapmap]
rs7544221	0.81[ASN][1000 genomes]
rs760603	0.81[ASN][1000 genomes]
rs925892	0.81[ASN][1000 genomes]
rs9287089	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs932301	0.81[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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv831871	chr1:169320673-169486680	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer 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	28 gene(s)	inside rSNPs	diseases
3	nsv1001454	chr1:169387381-169465274	Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10919168	NME7	cis	parietal	SCAN
rs10919168	NME7	Cis_1M	lymphoblastoid	RTeQTL
rs10919168	KIFAP3	cis	cerebellum	SCAN
rs10919168	SELP	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169360800-169395200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr1:169382000-169395200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr1:169383600-169395400	Weak transcription	Ovary	ovary
4	chr1:169385000-169395200	Weak transcription	Brain Angular Gyrus	brain
5	chr1:169385400-169394800	Weak transcription	Brain Germinal Matrix	brain
6	chr1:169385600-169395200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr1:169385600-169395600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr1:169385600-169395800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:169387000-169395800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr1:169387800-169395400	Weak transcription	Brain Substantia Nigra	brain
11	chr1:169389000-169395400	Weak transcription	Fetal Brain Female	brain
12	chr1:169389600-169394600	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr1:169391000-169395600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:169391000-169395600	Weak transcription	Fetal Heart	heart
15	chr1:169391600-169394800	Weak transcription	Brain Anterior Caudate	brain
16	chr1:169392000-169395800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr1:169392600-169396400	Weak transcription	Liver	Liver
18	chr1:169394000-169395200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links