Variant report

Variant	rs9925624
Chromosome Location	chr16:81354745-81354746
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:81353747..81356742-chr7:139875388..139877334,2	MCF-7	breast:
2	chr16:81353685..81355203-chr16:81380884..81382518,2	MCF-7	breast:
3	chr16:81353821..81355333-chr6:170150533..170152454,2	MCF-7	breast:
4	chr16:81322640..81324450-chr16:81352381..81355344,2	K562	blood:

Variant related genes	Relation type
ENSG00000260231	Chromatin interaction
ENSG00000184786	Chromatin interaction
ENSG00000006459	Chromatin interaction
ENSG00000130023	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1075352	0.93[AMR][1000 genomes]
rs1075353	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs11150385	0.89[CHB][hapmap];0.90[JPT][hapmap];0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11861054	1.00[AMR][1000 genomes]
rs11861072	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11861112	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11861158	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs11861322	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11861886	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs11862082	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs11862778	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs11862805	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs11866294	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11866308	0.94[AMR][1000 genomes]
rs11866327	1.00[AMR][1000 genomes]
rs11866374	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs11866407	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11866408	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11866700	1.00[AMR][1000 genomes]
rs16955014	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16955018	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16955027	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16955031	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16955040	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16955059	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955067	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs16955071	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955074	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955083	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955109	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955113	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955120	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955138	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955149	0.94[AMR][1000 genomes]
rs16955164	1.00[AMR][1000 genomes]
rs16955173	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs2059281	0.80[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs2317129	1.00[CEU][hapmap];1.00[AMR][1000 genomes]
rs28560203	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28561847	0.87[AMR][1000 genomes]
rs28864156	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34684636	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3803653	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4888138	0.93[YRI][hapmap];0.80[ASN][1000 genomes]
rs4889304	0.89[ASN][1000 genomes]
rs56859781	1.00[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs57928297	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58590084	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58594614	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59579335	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59586584	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7196278	0.82[ASN][1000 genomes]
rs7200201	0.80[ASN][1000 genomes]
rs7200204	0.80[ASN][1000 genomes]
rs7203686	0.85[YRI][hapmap];0.80[ASN][1000 genomes]
rs7499639	0.80[ASN][1000 genomes]
rs9934395	0.89[JPT][hapmap];0.92[YRI][hapmap];0.80[ASN][1000 genomes]
rs9935105	0.94[AMR][1000 genomes];0.87[EUR][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	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv532597	chr16:81009718-81388348	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
4	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
5	nsv1061359	chr16:81349826-81471867	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
6	nsv542992	chr16:81349826-81471867	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81349800-81357800	Weak transcription	Lung	lung
2	chr16:81349800-81358000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr16:81349800-81358400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr16:81349800-81358400	Weak transcription	Ovary	ovary
5	chr16:81349800-81365800	Weak transcription	Aorta	Aorta
6	chr16:81350000-81357200	Weak transcription	Fetal Stomach	stomach
7	chr16:81350000-81358000	Weak transcription	Fetal Intestine Small	intestine
8	chr16:81350000-81358200	Weak transcription	Primary T cells from cord blood	blood
9	chr16:81350000-81358400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr16:81350000-81361400	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr16:81350000-81361600	Weak transcription	Primary B cells from peripheral blood	blood
12	chr16:81350000-81364800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr16:81350000-81365800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr16:81350000-81371200	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr16:81350000-81372000	Weak transcription	Primary B cells from cord blood	blood
16	chr16:81350000-81373200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr16:81350000-81375000	Weak transcription	Fetal Intestine Large	intestine
18	chr16:81350200-81358400	Weak transcription	Right Atrium	heart
19	chr16:81350400-81355200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr16:81350400-81356800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr16:81350400-81357200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr16:81350400-81357200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr16:81350400-81357800	Weak transcription	Brain Hippocampus Middle	brain
24	chr16:81350400-81357800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr16:81350400-81358400	Weak transcription	Spleen	Spleen
26	chr16:81350400-81367600	Weak transcription	Duodenum Mucosa	Duodenum
27	chr16:81350400-81370400	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr16:81350400-81373200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr16:81350600-81358000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr16:81350600-81363000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr16:81350600-81367600	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr16:81350600-81372800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr16:81350800-81365800	Weak transcription	Fetal Brain Male	brain
34	chr16:81351000-81357800	Weak transcription	Brain Anterior Caudate	brain
35	chr16:81351000-81358000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr16:81351200-81357800	Weak transcription	Brain Angular Gyrus	brain
37	chr16:81351200-81359400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr16:81351200-81369800	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr16:81351400-81368800	Weak transcription	Dnd41	blood
40	chr16:81351400-81371200	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr16:81352000-81355600	Enhancers	Colon Smooth Muscle	Colon
42	chr16:81352000-81355600	Enhancers	NHEK	skin
43	chr16:81352200-81355800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr16:81352200-81358000	Weak transcription	Brain Substantia Nigra	brain
45	chr16:81352400-81355000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr16:81352400-81355800	Enhancers	Rectal Smooth Muscle	rectum
47	chr16:81352600-81362800	Weak transcription	Gastric	stomach
48	chr16:81352800-81357800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr16:81352800-81357800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr16:81352800-81357800	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links