Variant report

Variant	rs1310977
Chromosome Location	chr9:97172946-97172947
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10993181	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1752783	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1752786	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1769260	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2265535	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2277182	0.96[CEU][hapmap];0.85[YRI][hapmap];0.81[ASN][1000 genomes]
rs2486600	0.81[ASN][1000 genomes]
rs2491800	0.83[AMR][1000 genomes]
rs2769119	0.96[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2986834	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2986856	1.00[YRI][hapmap]
rs3121031	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3121039	0.82[ASN][1000 genomes]
rs4430150	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4434674	0.81[ASN][1000 genomes]
rs4436181	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4477096	0.89[CEU][hapmap];0.81[ASN][1000 genomes]
rs4559302	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4744336	0.89[CEU][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6479537	0.96[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs670230	0.93[CEU][hapmap];0.87[YRI][hapmap]
rs684892	0.96[CEU][hapmap];0.86[YRI][hapmap];0.81[ASN][1000 genomes]
rs7023744	0.81[ASN][1000 genomes]
rs7023915	0.81[ASN][1000 genomes]
rs7025755	0.92[CEU][hapmap];0.86[YRI][hapmap];0.81[ASN][1000 genomes]
rs7029113	0.96[CEU][hapmap];1.00[YRI][hapmap]
rs7040577	0.81[ASN][1000 genomes]
rs7847746	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7868530	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9299422	0.92[CEU][hapmap]
rs9409530	0.85[EUR][1000 genomes]
rs9409531	0.83[EUR][1000 genomes]
rs9409543	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9409736	0.80[EUR][1000 genomes]
rs9409748	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9409752	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9409755	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9409763	0.81[ASN][1000 genomes]
rs9409765	0.96[CEU][hapmap];0.85[YRI][hapmap];0.81[ASN][1000 genomes]
rs9696557	0.96[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv982324	chr9:97139062-97200156	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1310977	RP11-307E17.8	cis	Esophagus Muscularis	GTEx

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97151400-97175600	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr9:97153800-97182200	Weak transcription	NHEK	skin
3	chr9:97158000-97203200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:97160200-97182400	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:97160200-97183400	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr9:97160400-97203600	Weak transcription	Primary B cells from peripheral blood	blood
7	chr9:97160800-97177000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:97164400-97185200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr9:97166400-97206400	Weak transcription	HSMMtube	muscle
10	chr9:97167800-97203600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:97168800-97175800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr9:97169800-97207000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr9:97170800-97175800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr9:97171600-97174200	Enhancers	Primary T cells fromperipheralblood	blood
15	chr9:97171800-97178800	Weak transcription	Fetal Intestine Small	intestine
16	chr9:97172000-97175800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr9:97172000-97176000	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr9:97172000-97176000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr9:97172000-97186000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr9:97172000-97203200	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr9:97172000-97208400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr9:97172600-97204200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr9:97172800-97182400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links