Variant report

Variant	rs31923
Chromosome Location	chr5:14671030-14671031
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:14670223..14672828-chr5:14683390..14686379,2	K562	blood:
2	chr5:14662258..14667508-chr5:14670830..14674480,6	MCF-7	breast:
3	chr5:14668622..14671046-chr5:14674810..14676511,2	K562	blood:

Variant related genes	Relation type
ENSG00000261360	Chromatin interaction
ENSG00000154124	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10062487	0.86[EUR][1000 genomes]
rs10078335	0.88[EUR][1000 genomes]
rs13189930	0.87[JPT][hapmap]
rs149181	0.83[ASN][1000 genomes]
rs149493	0.85[ASN][1000 genomes]
rs149617	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs152788	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs153829	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs153830	0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs166127	0.89[ASN][1000 genomes]
rs16903644	0.82[YRI][hapmap]
rs16903654	0.85[YRI][hapmap]
rs183681	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1875513	1.00[JPT][hapmap]
rs2455402	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs250435	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs250439	0.85[ASN][1000 genomes]
rs250440	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs250862	0.87[ASN][1000 genomes]
rs251496	0.88[ASN][1000 genomes]
rs258290	0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs258374	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs25945	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs25951	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs25952	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs25983	0.87[JPT][hapmap]
rs25986	0.82[CHB][hapmap];0.96[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs25987	0.82[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs25988	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs25992	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs26307	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs27356	0.87[JPT][hapmap]
rs27882	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs27911	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28004	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31919	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31921	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31922	0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs31924	0.82[ASN][1000 genomes]
rs31925	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs31926	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31928	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31929	0.90[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs31930	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31968	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3866215	0.85[JPT][hapmap]
rs40578	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41396244	0.83[LWK][hapmap];0.95[MKK][hapmap]
rs42358	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs42410	0.99[ASN][1000 genomes]
rs42681	0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs456180	0.82[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs459467	0.88[ASN][1000 genomes]
rs466880	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4702043	1.00[JPT][hapmap]
rs6554856	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6872954	1.00[JPT][hapmap]
rs73048831	0.86[EUR][1000 genomes]
rs73048837	0.84[EUR][1000 genomes]
rs73048838	0.80[EUR][1000 genomes]
rs745328	0.93[JPT][hapmap]
rs95492	0.90[CHB][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv830211	chr5:14474675-14675776	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	esv1801565	chr5:14671030-14684471	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14665600-14676600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:14666200-14672200	Weak transcription	Aorta	Aorta
3	chr5:14666400-14671200	Weak transcription	Brain Angular Gyrus	brain
4	chr5:14666400-14672200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr5:14666400-14673200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr5:14666400-14673200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr5:14666400-14674200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr5:14666400-14675600	Weak transcription	Placenta	Placenta
9	chr5:14666400-14678200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr5:14666400-14681600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr5:14666400-14688200	Weak transcription	Ovary	ovary
12	chr5:14666600-14672000	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr5:14666600-14672200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr5:14666600-14688200	Weak transcription	Brain Germinal Matrix	brain
15	chr5:14666800-14671200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr5:14666800-14671400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr5:14666800-14671600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr5:14666800-14671600	Weak transcription	NHDF-Ad	bronchial
19	chr5:14666800-14672000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr5:14666800-14672000	Weak transcription	HSMM	muscle
21	chr5:14666800-14672200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr5:14666800-14675600	Weak transcription	NHLF	lung
23	chr5:14666800-14675800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:14667000-14671200	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr5:14667000-14671200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr5:14667000-14671200	Weak transcription	Brain Hippocampus Middle	brain
27	chr5:14667000-14671600	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr5:14667000-14672200	Weak transcription	Brain Substantia Nigra	brain
29	chr5:14667000-14672400	Weak transcription	Brain Anterior Caudate	brain
30	chr5:14667000-14672400	Weak transcription	HSMMtube	muscle
31	chr5:14667000-14675600	Weak transcription	Thymus	Thymus
32	chr5:14667000-14676600	Weak transcription	Fetal Kidney	kidney
33	chr5:14667000-14680000	Weak transcription	Fetal Brain Female	brain
34	chr5:14667000-14681200	Weak transcription	Brain Cingulate Gyrus	brain
35	chr5:14667000-14690400	Weak transcription	Fetal Brain Male	brain
36	chr5:14667200-14672000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr5:14667200-14672600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr5:14667400-14676600	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr5:14668200-14672200	Weak transcription	Gastric	stomach
40	chr5:14668200-14672200	Weak transcription	Lung	lung
41	chr5:14668200-14672200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr5:14668200-14672600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr5:14668200-14674200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr5:14668400-14671200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr5:14668400-14671200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr5:14668600-14671200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr5:14668600-14671200	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr5:14668600-14672000	Weak transcription	Colonic Mucosa	Colon
49	chr5:14668600-14672000	Weak transcription	Pancreas	Pancrea
50	chr5:14668600-14672200	Enhancers	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links