Variant report

Variant	rs840689
Chromosome Location	chr2:177681782-177681783
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:177681778..177682466-chr2:177694782..177695701,2	MCF-7	breast:
2	chr2:177681169..177682003-chr2:178013015..178013846,2	MCF-7	breast:
3	chr2:177680489..177682595-chr2:178006256..178007804,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HNRNPA3-11	chr2:177681733-177681819	NONHSAT075679

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1098452	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1153669	1.00[EUR][1000 genomes]
rs1251031	1.00[EUR][1000 genomes]
rs1251036	1.00[EUR][1000 genomes]
rs13383291	1.00[EUR][1000 genomes]
rs13400152	1.00[EUR][1000 genomes]
rs13401042	1.00[EUR][1000 genomes]
rs13415518	1.00[EUR][1000 genomes]
rs1513872	1.00[EUR][1000 genomes]
rs16864739	1.00[EUR][1000 genomes]
rs1849605	1.00[EUR][1000 genomes]
rs2203301	1.00[EUR][1000 genomes]
rs2203302	1.00[EUR][1000 genomes]
rs57416198	1.00[EUR][1000 genomes]
rs57736481	1.00[EUR][1000 genomes]
rs57742539	1.00[EUR][1000 genomes]
rs59784805	1.00[EUR][1000 genomes]
rs59975233	1.00[EUR][1000 genomes]
rs60505165	1.00[EUR][1000 genomes]
rs60806293	1.00[EUR][1000 genomes]
rs6433616	0.80[MKK][hapmap];1.00[EUR][1000 genomes]
rs73039484	1.00[EUR][1000 genomes]
rs73039488	1.00[EUR][1000 genomes]
rs73039490	1.00[EUR][1000 genomes]
rs73039495	1.00[EUR][1000 genomes]
rs73041409	1.00[EUR][1000 genomes]
rs73041425	1.00[EUR][1000 genomes]
rs73041476	1.00[EUR][1000 genomes]
rs73041480	1.00[EUR][1000 genomes]
rs73041485	1.00[EUR][1000 genomes]
rs7607833	1.00[EUR][1000 genomes]
rs840680	1.00[EUR][1000 genomes]
rs840683	1.00[EUR][1000 genomes]
rs840687	0.80[AFR][1000 genomes]
rs840688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs840690	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs840692	1.00[EUR][1000 genomes]
rs840693	1.00[EUR][1000 genomes]
rs840694	1.00[EUR][1000 genomes]
rs840695	1.00[EUR][1000 genomes]
rs840705	1.00[EUR][1000 genomes]
rs938273	1.00[EUR][1000 genomes]
rs938274	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527737	chr2:177538266-177692572	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv583686	chr2:177538266-177692572	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1006500	chr2:177548521-177707097	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:177678200-177683400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:177678600-177683200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr2:177679000-177683400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr2:177679600-177682000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:177679600-177682400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr2:177679600-177683000	Weak transcription	Fetal Lung	lung
7	chr2:177680000-177689000	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr2:177680200-177689000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr2:177680800-177682600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr2:177681400-177682000	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr2:177681400-177683400	Weak transcription	Fetal Muscle Leg	muscle
12	chr2:177681600-177681800	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr2:177681600-177681800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
14	chr2:177681600-177682000	Enhancers	Primary T cells from cord blood	blood
15	chr2:177681600-177682200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr2:177681600-177682200	Enhancers	Primary T cells fromperipheralblood	blood
17	chr2:177681600-177682200	Bivalent Enhancer	Fetal Brain Male	brain
18	chr2:177681600-177682400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr2:177681600-177684200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr2:177681600-177684400	Enhancers	H1 Cell Line	embryonic stem cell
21	chr2:177681600-177684400	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr2:177681600-177684400	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr2:177681600-177684400	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr2:177681600-177684600	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr2:177681600-177684600	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr2:177681600-177685200	Enhancers	HUES64 Cell Line	embryonic stem cell

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