Variant report

Variant	rs560571
Chromosome Location	chr11:77129171-77129172
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:77121279..77124216-chr11:77128750..77132079,3	MCF-7	breast:
2	chr11:77011163..77013583-chr11:77127822..77130720,2	K562	blood:
3	chr11:77123513..77125266-chr11:77129067..77130720,2	K562	blood:

Variant related genes	Relation type
ENSG00000149269	Chromatin interaction
ENSG00000178795	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs11237141	0.87[ASN][1000 genomes]
rs11237142	0.87[ASN][1000 genomes]
rs11237148	0.87[ASN][1000 genomes]
rs11237150	0.87[ASN][1000 genomes]
rs11237151	0.87[ASN][1000 genomes]
rs11237164	0.84[ASN][1000 genomes]
rs1125619	0.84[ASN][1000 genomes]
rs1225478	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12361757	0.87[ASN][1000 genomes]
rs12363707	0.87[ASN][1000 genomes]
rs12363842	0.87[ASN][1000 genomes]
rs12366261	0.84[ASN][1000 genomes]
rs1237490	0.86[EUR][1000 genomes]
rs12794253	0.87[ASN][1000 genomes]
rs1377472	0.87[ASN][1000 genomes]
rs1597954	0.80[ASN][1000 genomes]
rs1622364	0.87[ASN][1000 genomes]
rs1670446	0.87[ASN][1000 genomes]
rs1670449	0.87[ASN][1000 genomes]
rs1670450	0.87[ASN][1000 genomes]
rs1670456	0.87[ASN][1000 genomes]
rs1670458	0.87[ASN][1000 genomes]
rs1670461	0.84[ASN][1000 genomes]
rs1670462	0.84[ASN][1000 genomes]
rs17824184	0.87[ASN][1000 genomes]
rs1793468	0.87[ASN][1000 genomes]
rs1793471	0.84[ASN][1000 genomes]
rs1793472	0.87[ASN][1000 genomes]
rs1793487	0.87[ASN][1000 genomes]
rs1793490	0.84[ASN][1000 genomes]
rs2154754	0.86[EUR][1000 genomes]
rs2156567	0.87[ASN][1000 genomes]
rs2602476	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2602483	0.87[ASN][1000 genomes]
rs2602487	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2725820	0.84[ASN][1000 genomes]
rs2725822	0.87[ASN][1000 genomes]
rs2725825	0.87[ASN][1000 genomes]
rs2725828	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3015982	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015983	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015985	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015986	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015988	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015990	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3015992	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3019233	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3019234	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3019235	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3019236	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3019249	0.91[EUR][1000 genomes]
rs3019257	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34025917	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34880271	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4375461	0.87[ASN][1000 genomes]
rs472691	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs476258	0.86[EUR][1000 genomes]
rs479104	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs493256	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs494289	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs503406	0.94[EUR][1000 genomes]
rs505841	0.85[EUR][1000 genomes]
rs508662	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs51500	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs520938	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs522015	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs523481	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs531638	0.90[EUR][1000 genomes]
rs535008	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs552323	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs557484	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs558470	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs561386	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs562845	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs563731	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs572485	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs576220	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs580624	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs592602	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs595654	0.90[EUR][1000 genomes]
rs598801	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs644551	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs649040	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs653792	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs657269	0.80[EUR][1000 genomes]
rs66518011	0.84[ASN][1000 genomes]
rs66540426	0.87[ASN][1000 genomes]
rs66728428	0.87[ASN][1000 genomes]
rs674259	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs683455	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs683762	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs684793	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs686068	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs689108	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7934230	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7949721	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs883680	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048360	chr11:76900813-77387933	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv541089	chr11:76900813-77387933	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1049603	chr11:76900813-77520411	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv541090	chr11:76900813-77520411	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	esv3424135	chr11:76961603-77277087	Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1037724	chr11:77061945-77250391	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv541091	chr11:77061945-77250391	Weak transcription Active TSS Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv3437433	chr11:77101280-77291686	Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:77123000-77131400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:77123400-77131600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr11:77123400-77147000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr11:77123400-77147200	Weak transcription	Pancreas	Pancrea
5	chr11:77123600-77129400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:77123600-77132600	Weak transcription	Stomach Mucosa	stomach
7	chr11:77123600-77135200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr11:77123600-77135800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr11:77123800-77129200	Weak transcription	Primary hematopoietic stem cells	blood
10	chr11:77123800-77129200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr11:77123800-77129200	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr11:77124000-77129400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr11:77124000-77131000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr11:77124000-77135000	Weak transcription	Brain Anterior Caudate	brain
15	chr11:77124200-77129600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:77124200-77147000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr11:77124400-77129400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr11:77124600-77129400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr11:77124600-77133400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr11:77125000-77129400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr11:77125200-77129600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr11:77125200-77131200	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr11:77125400-77129400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr11:77125400-77129400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr11:77125600-77129400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr11:77126600-77129200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr11:77126600-77129400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr11:77126600-77129400	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr11:77126600-77129400	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr11:77126600-77129400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr11:77128200-77130000	Enhancers	Duodenum Mucosa	Duodenum
32	chr11:77128400-77129200	Enhancers	GM12878-XiMat	blood
33	chr11:77128400-77129200	Enhancers	Monocytes-CD14+_RO01746	blood
34	chr11:77128400-77132400	Enhancers	Fetal Intestine Large	intestine
35	chr11:77128600-77129200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr11:77128600-77129400	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr11:77128800-77132400	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr11:77129000-77130800	Enhancers	Fetal Intestine Small	intestine

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