Variant report

Variant	rs1364346
Chromosome Location	chr16:58790324-58790325
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:58546668..58549443-chr16:58789792..58791379,2	K562	blood:
2	chr16:58712427..58713373-chr16:58789987..58790958,13	MCF-7	breast:
3	chr16:58715146..58717917-chr16:58788280..58790471,2	MCF-7	breast:
4	chr16:58545471..58546477-chr16:58789997..58790949,4	K562	blood:

Variant related genes	Relation type
ENSG00000103042	Chromatin interaction
ENSG00000103037	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs11076263	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11076270	0.82[EUR][1000 genomes]
rs11643969	0.83[EUR][1000 genomes]
rs11646756	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12325054	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12325510	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12596434	0.86[AFR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12598527	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12599931	0.82[EUR][1000 genomes]
rs12600201	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12600206	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12709013	0.82[EUR][1000 genomes]
rs12926993	0.82[EUR][1000 genomes]
rs12927495	0.83[EUR][1000 genomes]
rs12928733	0.94[EUR][1000 genomes]
rs12930298	0.80[EUR][1000 genomes]
rs12935488	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1473205	0.83[EUR][1000 genomes]
rs1473206	0.83[EUR][1000 genomes]
rs151817	0.84[EUR][1000 genomes]
rs1615326	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1616798	0.89[EUR][1000 genomes]
rs1627257	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1628029	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1646262	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1646270	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1646273	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1646276	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1646277	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1646283	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1646289	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1646290	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657162	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1657165	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1657168	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1657175	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657179	0.82[EUR][1000 genomes]
rs173992	0.81[ASN][1000 genomes]
rs244919	0.84[EUR][1000 genomes]
rs257623	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs257625	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs257626	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs30843	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs36098613	0.94[EUR][1000 genomes]
rs62064940	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62066381	0.95[EUR][1000 genomes]
rs62066382	0.89[EUR][1000 genomes]
rs62066815	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62066843	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7185513	0.86[AFR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8046667	0.82[EUR][1000 genomes]
rs8049572	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8054482	0.81[EUR][1000 genomes]
rs982848	0.84[EUR][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	esv2758427	chr16:58579005-58876037	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	esv2758650	chr16:58579005-58876037	ZNF genes & repeats Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1065296	chr16:58738198-58837859	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	n/a
4	nsv1065269	chr16:58743487-58972224	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:58789600-58790400	Enhancers	Primary T cells from cord blood	blood
2	chr16:58789600-58790400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr16:58789600-58790600	Enhancers	Primary hematopoietic stem cells	blood
4	chr16:58789600-58790600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr16:58789600-58791000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr16:58789800-58790400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
7	chr16:58789800-58790400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr16:58789800-58790400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
9	chr16:58789800-58790400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
10	chr16:58789800-58790400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
11	chr16:58789800-58790600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr16:58789800-58790600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr16:58789800-58790600	Flanking Active TSS	Dnd41	blood
14	chr16:58789800-58790600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr16:58790000-58790400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr16:58790000-58790400	Enhancers	H1 Cell Line	embryonic stem cell
17	chr16:58790000-58790400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr16:58790000-58790400	Flanking Active TSS	H9 Cell Line	embryonic stem cell
19	chr16:58790000-58790400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr16:58790000-58790400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
21	chr16:58790000-58790400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
22	chr16:58790000-58790400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr16:58790000-58790400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr16:58790000-58790400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
25	chr16:58790000-58790400	Enhancers	Primary B cells from cord blood	blood
26	chr16:58790000-58790400	Flanking Active TSS	Primary B cells from peripheral blood	blood
27	chr16:58790000-58790400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
28	chr16:58790000-58790400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
29	chr16:58790000-58790400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
30	chr16:58790000-58790400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
31	chr16:58790000-58790400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
32	chr16:58790000-58790400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr16:58790000-58790400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
34	chr16:58790000-58790400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
35	chr16:58790000-58790400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
36	chr16:58790000-58790400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
37	chr16:58790000-58790400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr16:58790000-58790400	Enhancers	Brain Cingulate Gyrus	brain
39	chr16:58790000-58790400	Enhancers	Brain Inferior Temporal Lobe	brain
40	chr16:58790000-58790400	Enhancers	Brain Substantia Nigra	brain
41	chr16:58790000-58790400	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr16:58790000-58790400	Enhancers	Thymus	Thymus
43	chr16:58790000-58790400	Flanking Active TSS	GM12878-XiMat	blood
44	chr16:58790000-58790400	Flanking Bivalent TSS/Enh	HepG2	liver
45	chr16:58790000-58790400	Flanking Active TSS	HUVEC	blood vessel
46	chr16:58790000-58790400	Flanking Active TSS	K562	blood
47	chr16:58790000-58790400	Bivalent/Poised TSS	Osteobl	bone
48	chr16:58790000-58790600	Active TSS	Brain Hippocampus Middle	brain
49	chr16:58790000-58790600	Enhancers	Spleen	Spleen
50	chr16:58790000-58791200	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links