Variant report

Variant	rs1376907
Chromosome Location	chr5:101779036-101779037
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10053573	0.94[YRI][hapmap]
rs10434748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10434749	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10463981	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10515326	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs12658397	0.90[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap]
rs1376905	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs17333350	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1901520	0.89[YRI][hapmap]
rs1982418	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs2113090	0.82[JPT][hapmap]
rs2123136	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2161601	0.85[JPT][hapmap]
rs2263376	0.85[JPT][hapmap]
rs2400796	0.81[YRI][hapmap]
rs2548724	0.84[JPT][hapmap]
rs2600825	0.84[JPT][hapmap]
rs2600827	0.84[JPT][hapmap]
rs2600828	0.85[JPT][hapmap]
rs2600830	0.84[JPT][hapmap]
rs2600832	0.85[JPT][hapmap]
rs2600834	0.89[JPT][hapmap]
rs2600835	0.83[JPT][hapmap]
rs261101	0.84[JPT][hapmap]
rs3096196	0.85[JPT][hapmap]
rs3114659	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs370176	0.84[JPT][hapmap]
rs390614	0.84[JPT][hapmap]
rs420900	0.85[JPT][hapmap]
rs431778	0.84[JPT][hapmap]
rs432190	0.85[JPT][hapmap]
rs438617	0.89[JPT][hapmap]
rs4386713	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs452857	0.84[JPT][hapmap]
rs6596486	0.87[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs6881112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs6884141	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs709370	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7710414	0.85[JPT][hapmap]
rs7728630	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7733501	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7734060	0.95[CHB][hapmap]
rs841922	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs841934	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817537	chr5:101489151-101992104	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1016176	chr5:101534391-102333606	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv537831	chr5:101534391-102333606	Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
4	nsv522882	chr5:101596633-101782930	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1029894	chr5:101620079-102516827	Enhancers Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
6	nsv830427	chr5:101651510-101849723	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv882511	chr5:101669015-101819981	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv882514	chr5:101672238-101795490	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv882515	chr5:101672238-101816104	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv882516	chr5:101672238-101819981	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv519686	chr5:101701924-101795490	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv526352	chr5:101701924-101795490	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1030022	chr5:101764756-101852804	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1376907	SLCO4C1	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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