Variant report

Variant	rs4290160
Chromosome Location	chr10:97680622-97680623
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCTN3-1	chr10:97678695-97681354	ENSG00000226688.1
2	lnc-TCTN3-1	chr10:97678695-97681354	NONHSAT015782

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10748650	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10786244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10882682	0.82[ASN][1000 genomes]
rs10882683	0.85[ASN][1000 genomes]
rs10882685	0.93[ASN][1000 genomes]
rs10882688	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs10882692	0.91[JPT][hapmap]
rs10882695	0.92[JPT][hapmap]
rs10882696	0.91[JPT][hapmap]
rs10882700	0.87[JPT][hapmap]
rs11188518	0.90[CHB][hapmap]
rs11188519	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188520	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11819376	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12217589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12221469	0.92[JPT][hapmap]
rs12267027	0.92[JPT][hapmap]
rs1360955	0.85[JPT][hapmap]
rs17111195	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34078069	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917718	0.84[JPT][hapmap]
rs7893334	0.91[JPT][hapmap]
rs7893601	0.81[ASN][1000 genomes]
rs7902190	0.81[CHB][hapmap]
rs7903617	0.85[JPT][hapmap]
rs7905861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909097	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7918631	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7922059	0.92[JPT][hapmap]
rs7922216	0.91[JPT][hapmap]
rs9919426	0.89[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	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats 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	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97668200-97693600	Weak transcription	Fetal Stomach	stomach
2	chr10:97675600-97693400	Weak transcription	Aorta	Aorta
3	chr10:97677400-97681000	Weak transcription	Lung	lung
4	chr10:97680200-97681000	Enhancers	H9 Cell Line	embryonic stem cell
5	chr10:97680200-97681200	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr10:97680400-97680800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr10:97680400-97681000	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr10:97680400-97681000	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr10:97680400-97681200	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr10:97680600-97681000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr10:97680600-97681000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:97680600-97681000	Enhancers	HepG2	liver
13	chr10:97680600-97681200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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