Variant report

Variant	rs2672833
Chromosome Location	chr5:177897779-177897780
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:177885956..177889656-chr5:177894667..177897889,3	MCF-7	breast:
2	chr5:177894292..177896063-chr5:177897258..177899224,2	K562	blood:
3	chr5:177780201..177782328-chr5:177897256..177899348,2	MCF-7	breast:
4	chr5:177861063..177863215-chr5:177895852..177898464,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11249802	1.00[ASN][1000 genomes]
rs11249803	1.00[ASN][1000 genomes]
rs1546222	0.90[EUR][1000 genomes]
rs2133280	0.87[EUR][1000 genomes]
rs2546633	0.90[EUR][1000 genomes]
rs2546634	0.90[EUR][1000 genomes]
rs2546635	0.90[EUR][1000 genomes]
rs2546636	0.90[EUR][1000 genomes]
rs2546639	0.87[EUR][1000 genomes]
rs2546641	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2647691	1.00[YRI][hapmap]
rs2647692	1.00[YRI][hapmap]
rs2647697	0.90[EUR][1000 genomes]
rs2647700	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2647701	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2647704	1.00[ASN][1000 genomes]
rs2672828	1.00[ASN][1000 genomes]
rs2672829	1.00[ASN][1000 genomes]
rs2672831	0.90[EUR][1000 genomes]
rs2672832	0.87[EUR][1000 genomes]
rs2672834	0.90[EUR][1000 genomes]
rs2672842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4280893	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4976726	1.00[YRI][hapmap]
rs622432	1.00[ASN][1000 genomes]
rs6874551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6887137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72810641	1.00[ASN][1000 genomes]
rs72822840	1.00[ASN][1000 genomes]
rs72822856	1.00[ASN][1000 genomes]
rs72822884	1.00[ASN][1000 genomes]
rs72822886	1.00[ASN][1000 genomes]
rs72822887	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948342	chr5:177384542-178168737	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	141 gene(s)	inside rSNPs	diseases
2	nsv1029398	chr5:177502106-178070654	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	136 gene(s)	inside rSNPs	diseases
3	nsv1024689	chr5:177638936-177926244	Enhancers Bivalent Enhancer Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv537968	chr5:177638936-177926244	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	nsv427739	chr5:177766033-177966666	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv883210	chr5:177771925-177980792	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv883213	chr5:177811754-177947771	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv462570	chr5:177860454-178010145	Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv600423	chr5:177860454-178010145	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1029822	chr5:177872333-177931889	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1033039	chr5:177873974-177926244	Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv537971	chr5:177873974-177926244	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv883214	chr5:177876309-178047217	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1030915	chr5:177880081-177934927	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177890600-177901600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr5:177893600-177898000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
3	chr5:177894400-177899400	Weak transcription	Fetal Intestine Small	intestine
4	chr5:177894600-177902000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr5:177895200-177901600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:177895400-177900400	Weak transcription	Fetal Thymus	thymus
7	chr5:177895600-177898000	Enhancers	Fetal Lung	lung
8	chr5:177895800-177898600	Weak transcription	Esophagus	oesophagus
9	chr5:177895800-177901200	Weak transcription	Liver	Liver
10	chr5:177896000-177900600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr5:177896000-177903600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr5:177896200-177898000	Weak transcription	Pancreas	Pancrea
13	chr5:177896200-177898000	Weak transcription	Spleen	Spleen
14	chr5:177896200-177898600	Weak transcription	Right Ventricle	heart
15	chr5:177896200-177901200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:177896600-177898000	Bivalent Enhancer	Fetal Stomach	stomach
17	chr5:177896600-177900600	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr5:177897000-177897800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr5:177897200-177899400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr5:177897200-177899600	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr5:177897400-177898200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr5:177897600-177899000	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr5:177897600-177899400	Enhancers	H1 Cell Line	embryonic stem cell
24	chr5:177897600-177899400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:177897600-177900600	Weak transcription	Primary neutrophils fromperipheralblood	blood

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