Variant report

Variant	rs73339896
Chromosome Location	chr5:177388007-177388008
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs56824291	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56899500	1.00[AFR][1000 genomes]
rs57731900	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57988181	1.00[ASN][1000 genomes]
rs59195598	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs59722055	0.98[AFR][1000 genomes]
rs73339865	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73339870	0.98[AFR][1000 genomes]
rs73339875	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73339883	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73339885	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73339894	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73339898	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024444	chr5:176751921-177427715	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	142 gene(s)	inside rSNPs	diseases
2	esv2752795	chr5:176898619-177488281	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
3	nsv1030383	chr5:177310325-177571254	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv883184	chr5:177311043-177488281	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv883185	chr5:177357964-177401509	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv521629	chr5:177364884-177396200	Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv883186	chr5:177376317-177549491	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv883187	chr5:177377400-177419967	ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	esv2760946	chr5:177379490-177401509	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv432821	chr5:177380624-177400868	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv517302	chr5:177383782-177400248	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	esv2754618	chr5:177384542-177413659	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	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
14	nsv1021198	chr5:177386267-177611648	Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
15	nsv1021060	chr5:177386344-177539867	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
16	esv3485488	chr5:177387861-177390219	ZNF genes & repeats Weak transcription Strong transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
17	esv3485489	chr5:177387861-177390219	Weak transcription Strong transcription ZNF genes & repeats Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:177368200-177396400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr5:177371000-177393000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr5:177371600-177389600	Weak transcription	Brain Germinal Matrix	brain
4	chr5:177371800-177388200	Weak transcription	Gastric	stomach
5	chr5:177371800-177390200	Weak transcription	Primary T cells from cord blood	blood
6	chr5:177371800-177390800	Weak transcription	Ovary	ovary
7	chr5:177371800-177392800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr5:177371800-177394200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr5:177371800-177394200	Weak transcription	Right Ventricle	heart
10	chr5:177372200-177390000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr5:177372600-177388200	Weak transcription	Esophagus	oesophagus
12	chr5:177378000-177388400	Weak transcription	Primary B cells from peripheral blood	blood
13	chr5:177379200-177392400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr5:177383800-177393600	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr5:177385000-177389200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr5:177386400-177393600	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr5:177386400-177394400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr5:177386600-177395600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr5:177386800-177388200	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr5:177386800-177388200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr5:177386800-177389200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr5:177386800-177395800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr5:177387600-177388200	Strong transcription	Pancreas	Pancrea
24	chr5:177387600-177388800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:177387800-177388200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr5:177387800-177388200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr5:177387800-177388600	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
28	chr5:177388000-177388400	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
29	chr5:177388000-177388800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links