Variant report

Variant	rs1413398
Chromosome Location	chr10:25637975-25637976
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:25606928..25608702-chr10:25636326..25639003,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10741085	0.95[JPT][hapmap]
rs10764548	0.95[JPT][hapmap]
rs10828776	0.93[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap]
rs10828800	0.95[JPT][hapmap]
rs11014552	0.95[JPT][hapmap]
rs1329258	0.93[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap]
rs1329267	0.95[JPT][hapmap]
rs1329268	0.85[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1334057	0.92[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1341961	0.95[JPT][hapmap]
rs1341962	1.00[JPT][hapmap]
rs1341967	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1361633	0.95[JPT][hapmap]
rs1410928	0.95[JPT][hapmap]
rs1410935	0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs1413395	0.86[ASN][1000 genomes]
rs1413396	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs1418126	0.95[JPT][hapmap]
rs1418129	0.95[JPT][hapmap]
rs1576319	0.93[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1612726	0.95[JPT][hapmap]
rs1754246	0.95[JPT][hapmap]
rs1754248	0.95[JPT][hapmap]
rs1754252	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1754259	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1754263	0.85[ASN][1000 genomes]
rs1754270	0.95[JPT][hapmap]
rs1754277	0.95[JPT][hapmap]
rs1754281	0.95[JPT][hapmap]
rs1760750	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1760757	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1773604	0.85[ASN][1000 genomes]
rs1773615	0.92[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1773624	0.93[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap]
rs1773631	0.93[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap]
rs1773652	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1773654	0.95[JPT][hapmap]
rs1773656	0.95[JPT][hapmap]
rs1773658	0.95[JPT][hapmap]
rs1773659	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1773663	0.95[JPT][hapmap]
rs1773678	0.95[JPT][hapmap]
rs1773681	0.83[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs1773682	0.95[JPT][hapmap]
rs1812401	0.85[CEU][hapmap];0.86[ASN][1000 genomes]
rs1854471	0.93[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap]
rs1855462	0.86[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs2262990	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2480351	0.90[JPT][hapmap]
rs3949311	0.95[JPT][hapmap]
rs4271295	0.95[JPT][hapmap]
rs4405201	0.93[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.87[YRI][hapmap]
rs4749022	0.95[JPT][hapmap]
rs539357	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs545616	0.85[CEU][hapmap];0.86[ASN][1000 genomes]
rs545905	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs564371	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs577382	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7072189	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs7392687	0.95[JPT][hapmap]
rs768540	0.93[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap]
rs7924230	0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs824153	0.92[ASN][1000 genomes]
rs824591	0.89[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs824594	0.95[JPT][hapmap]
rs824596	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs824601	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs824602	0.83[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs824604	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs844042	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs956085	0.95[JPT][hapmap]
rs956086	0.95[JPT][hapmap]
rs956088	0.83[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs961027	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761583	chr10:25525657-25722444	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3349863	chr10:25614571-25946379	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv3371273	chr10:25636346-25640744	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2492571	chr10:25637591-25639384	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25632400-25642600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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