Variant report

Variant	rs1965160
Chromosome Location	chr2:172904758-172904759
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:172903935..172905643-chr2:172934942..172937161,2	MCF-7	breast:
2	chr2:172904144..172906423-chr2:172922589..172924377,2	MCF-7	breast:
3	chr2:172901732..172906441-chr2:172911766..172917938,8	K562	blood:
4	chr2:172863850..172866643-chr2:172902053..172905217,4	MCF-7	breast:
5	chr2:172903157..172907693-chr2:172948761..172951309,4	MCF-7	breast:
6	chr2:172903155..172905695-chr2:172921268..172923071,2	K562	blood:
7	chr2:172904276..172906441-chr2:172912588..172915159,2	K562	blood:
8	chr2:172904432..172906257-chr2:172909270..172911024,2	K562	blood:
9	chr2:172901921..172905424-chr2:172916575..172920187,5	MCF-7	breast:
10	chr2:172901825..172905111-chr2:172958470..172962198,5	MCF-7	breast:
11	chr2:172896231..172898804-chr2:172903539..172906403,3	K562	blood:
12	chr2:172903508..172905484-chr2:172912161..172915678,3	MCF-7	breast:
13	chr2:172900542..172905634-chr2:172946761..172951890,10	MCF-7	breast:
14	chr2:172903562..172906519-chr2:172947983..172949880,2	K562	blood:

No data

No data

No data

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1008151	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs12987931	1.00[CHB][hapmap];0.88[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12989560	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13015360	0.86[EUR][1000 genomes]
rs13020884	0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2129475	0.81[EUR][1000 genomes]
rs34054371	0.87[EUR][1000 genomes]
rs4581870	0.84[CHB][hapmap]
rs62183819	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6718013	0.92[CHB][hapmap]
rs6725971	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6737308	0.92[CHB][hapmap]
rs7584187	0.92[CHB][hapmap]
rs7586556	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs788163	0.81[YRI][hapmap]
rs788166	0.83[YRI][hapmap]
rs788170	0.83[YRI][hapmap]
rs788171	0.85[YRI][hapmap]
rs796839	0.81[EUR][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	nsv875411	chr2:172693780-172942448	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	esv2830399	chr2:172781830-172952526	Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1012188	chr2:172855923-172928891	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv1798626	chr2:172900948-172909852	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv875412	chr2:172903124-172942448	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1965160	AC068039.4	cis	Adipose Subcutaneous	GTEx
rs1965160	AC068039.4	cis	Muscle Skeletal	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:172901200-172907400	Weak transcription	Fetal Kidney	kidney

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Input of quick search could be:

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

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