Variant report

Variant	rs31460
Chromosome Location	chr5:16933234-16933235
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:16916910..16918830-chr5:16931583..16933515,2	MCF-7	breast:
2	chr5:16843726..16846155-chr5:16931255..16933740,2	MCF-7	breast:
3	chr5:16932890..16934632-chr5:16945745..16947354,2	MCF-7	breast:
4	chr5:16921246..16923281-chr5:16933082..16934946,2	MCF-7	breast:
5	chr5:16931500..16934308-chr5:16935460..16937952,2	K562	blood:

Variant related genes	Relation type
ENSG00000145555	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10068690	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2434963	0.81[AFR][1000 genomes]
rs31456	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31457	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31458	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31459	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31461	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31462	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31463	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73066810	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025225	chr5:16714512-17234866	Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1015247	chr5:16748966-17133274	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	esv2762500	chr5:16815489-16952565	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
4	nsv880277	chr5:16829442-17316288	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	esv3485757	chr5:16856475-16966851	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	esv3485758	chr5:16856475-16966851	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:16914600-16934400	Weak transcription	Psoas Muscle	Psoas
2	chr5:16929600-16933400	Enhancers	Stomach Mucosa	stomach
3	chr5:16929600-16933600	Enhancers	Pancreas	Pancrea
4	chr5:16929800-16933800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr5:16930200-16933400	Enhancers	Ovary	ovary
6	chr5:16930200-16934000	Enhancers	Fetal Intestine Large	intestine
7	chr5:16930200-16934000	Enhancers	Fetal Muscle Leg	muscle
8	chr5:16931000-16933600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:16931000-16933600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:16931000-16933800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr5:16931400-16933400	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr5:16931400-16934000	Enhancers	Fetal Kidney	kidney
13	chr5:16931600-16933400	Transcr. at gene 5' and 3'	A549	lung
14	chr5:16931600-16933800	Enhancers	Fetal Intestine Small	intestine
15	chr5:16931600-16933800	Flanking Active TSS	HUVEC	blood vessel
16	chr5:16931600-16934000	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr5:16931600-16934000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr5:16931600-16934200	Enhancers	Hela-S3	cervix
19	chr5:16931600-16934600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr5:16931800-16933600	Weak transcription	Aorta	Aorta
21	chr5:16931800-16934000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr5:16931800-16934000	Weak transcription	Lung	lung
23	chr5:16931800-16934400	Weak transcription	Spleen	Spleen
24	chr5:16931800-16937000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr5:16932200-16933800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr5:16932400-16933400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr5:16932400-16933400	Enhancers	Gastric	stomach
28	chr5:16932400-16933800	Flanking Active TSS	NH-A	brain
29	chr5:16932400-16933800	Flanking Active TSS	NHLF	lung
30	chr5:16932600-16933400	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
31	chr5:16932600-16933400	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr5:16932600-16933800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr5:16932600-16933800	Flanking Active TSS	Duodenum Mucosa	Duodenum
34	chr5:16932600-16935400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr5:16932600-16937000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr5:16932600-16937000	Active TSS	Rectal Mucosa Donor 29	rectum
37	chr5:16932600-16937200	Active TSS	HSMMtube	muscle
38	chr5:16932800-16933400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr5:16932800-16933400	Active TSS	Colonic Mucosa	Colon
40	chr5:16932800-16933800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr5:16932800-16934000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr5:16932800-16934000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
43	chr5:16932800-16936200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
44	chr5:16933000-16933400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
45	chr5:16933000-16933400	Bivalent Enhancer	Adipose Nuclei	Adipose
46	chr5:16933000-16933400	Enhancers	Esophagus	oesophagus
47	chr5:16933000-16933400	Active TSS	HSMM	muscle
48	chr5:16933000-16933400	Enhancers	NHDF-Ad	bronchial
49	chr5:16933000-16933600	Enhancers	Placenta	Placenta
50	chr5:16933000-16934000	Active TSS	Rectal Smooth Muscle	rectum

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