Variant report

Variant	rs10802990
Chromosome Location	chr1:241907817-241907818
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:241681416..241683042-chr1:241907087..241909175,2	K562	blood:
2	chr1:241906235..241909408-chr1:241912000..241913987,3	K562	blood:
3	chr1:241906486..241909325-chr1:241912182..241914206,2	K562	blood:
4	chr1:241868172..241869866-chr1:241906945..241909756,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162843	Chromatin interaction
ENSG00000091483	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10737867	0.82[ASN][1000 genomes]
rs10737868	0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs10737869	0.81[ASN][1000 genomes]
rs10754735	0.97[ASN][1000 genomes]
rs10802988	0.97[ASN][1000 genomes]
rs10802989	0.97[ASN][1000 genomes]
rs10926561	0.99[ASN][1000 genomes]
rs10926563	0.80[ASN][1000 genomes]
rs10926564	0.88[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs10926569	0.91[JPT][hapmap]
rs12022825	0.85[JPT][hapmap]
rs12042255	0.83[JPT][hapmap]
rs12081277	0.99[ASN][1000 genomes]
rs28394632	0.92[ASN][1000 genomes]
rs3922506	0.95[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];0.91[JPT][hapmap];0.99[ASN][1000 genomes]
rs3922507	0.99[ASN][1000 genomes]
rs4129118	0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs61825851	0.85[ASN][1000 genomes]
rs6413961	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6429300	0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6429301	0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6429304	0.82[ASN][1000 genomes]
rs6429305	0.81[ASN][1000 genomes]
rs6660811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6666953	0.86[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs6669036	0.86[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs6669629	0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs6680142	0.95[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6695661	0.95[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6695767	0.99[ASN][1000 genomes]
rs6696527	0.91[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs7368200	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7411702	0.99[ASN][1000 genomes]
rs7417495	0.85[ASN][1000 genomes]
rs7418198	0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7418599	0.95[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7418764	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs7530794	0.82[ASN][1000 genomes]
rs7530797	0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs7551270	0.87[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs9428515	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs9428520	0.81[JPT][hapmap]
rs9428521	0.81[JPT][hapmap]
rs9428898	0.81[JPT][hapmap]
rs9428900	0.81[JPT][hapmap]
rs9428902	0.81[JPT][hapmap]
rs952084	0.82[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv918034	chr1:241072791-242005532	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv997966	chr1:241100739-242087629	Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Weak 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 miRNA	40 gene(s)	inside rSNPs	diseases
3	nsv1002214	chr1:241458939-242099790	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
4	nsv873368	chr1:241533392-242195928	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv873372	chr1:241690554-242438293	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
6	nsv948409	chr1:241830086-242489705	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv528015	chr1:241865219-242070731	Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1008300	chr1:241886514-242171611	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	esv2762521	chr1:241891040-242074222	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

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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