Variant report

Variant	rs10919095
Chromosome Location	chr1:169180857-169180858
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10800410	0.81[AFR][1000 genomes]
rs10800411	0.81[AFR][1000 genomes]
rs10800415	0.85[AFR][1000 genomes]
rs10800417	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10800419	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs10800420	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs1080266	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1080267	0.86[ASN][1000 genomes]
rs10919090	0.81[AFR][1000 genomes]
rs10919106	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10919107	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs10919108	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs11802143	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs11808938	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11809256	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12059281	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12067072	0.81[AFR][1000 genomes]
rs12075832	0.81[AFR][1000 genomes]
rs12081283	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12083287	0.81[AFR][1000 genomes]
rs12084549	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12084957	0.81[ASN][1000 genomes]
rs12121346	0.80[ASN][1000 genomes]
rs12121395	0.84[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12123168	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12126032	0.81[AFR][1000 genomes]
rs12126266	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12127305	0.81[AFR][1000 genomes]
rs12130764	0.81[AFR][1000 genomes]
rs12141151	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12141917	0.85[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12145969	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12564596	0.81[AFR][1000 genomes]
rs12724093	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12724863	0.80[AFR][1000 genomes]
rs12739920	0.86[ASN][1000 genomes]
rs12740040	0.80[ASN][1000 genomes]
rs12741540	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12745997	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12747242	0.81[AFR][1000 genomes]
rs12751062	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2012763	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2300159	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs2420012	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs36079696	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3753297	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3753300	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3766065	0.82[AFR][1000 genomes]
rs3766069	0.81[AFR][1000 genomes]
rs3766070	0.81[AFR][1000 genomes]
rs3766071	0.81[AFR][1000 genomes]
rs4385775	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4445529	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4656181	0.83[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs4656659	0.81[AFR][1000 genomes]
rs4656662	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4656666	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs4656667	0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6679084	0.80[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6688038	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6688139	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6701686	0.80[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6703463	0.83[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6704482	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs72700019	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7526721	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7547686	0.87[ASN][1000 genomes]
rs909929	0.81[AFR][1000 genomes]
rs909930	0.81[AFR][1000 genomes]
rs909931	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3522071	chr1:168978325-169339044	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	esv3522072	chr1:168978325-169339044	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	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
4	nsv429913	chr1:169177019-169296744	Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv1834321	chr1:169180302-169240975	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv1845262	chr1:169180302-169240975	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10919095	NME7	cis	Thyroid	GTEx
rs10919095	NME7	Cis_1M	lymphoblastoid	RTeQTL
rs10919095	NME7	cis	Artery Tibial	GTEx
rs10919095	NME7	cis	Esophagus Muscularis	GTEx
rs10919095	NME7	cis	Nerve Tibial	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169130400-169195200	Weak transcription	Pancreas	Pancrea
2	chr1:169163600-169184000	Weak transcription	Ovary	ovary
3	chr1:169167800-169186800	Weak transcription	Primary T cells from cord blood	blood
4	chr1:169168000-169183800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr1:169171600-169184000	Weak transcription	Fetal Intestine Small	intestine
6	chr1:169172400-169183800	Weak transcription	Brain Germinal Matrix	brain
7	chr1:169172400-169207600	Weak transcription	Esophagus	oesophagus
8	chr1:169172600-169227000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:169173200-169202000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:169173600-169183800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr1:169176600-169206200	Weak transcription	Aorta	Aorta
12	chr1:169177400-169207400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:169178600-169191400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:169180000-169210000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr1:169180600-169206200	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links