Variant report

Variant	rs62517606
Chromosome Location	chr8:42981799-42981800
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SETDB1	chr8:42981609-42982534	U2OS	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:42981388..42985439-chr8:42992719..42998148,8	MCF-7	breast:
2	chr8:42981693..42984834-chr8:42995242..42997406,3	K562	blood:

Variant related genes	Relation type
ENSG00000254198	TF binding region
ENSG00000165102	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs13248091	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13249741	1.00[AMR][1000 genomes]
rs13252221	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13256221	0.89[AMR][1000 genomes]
rs13260731	1.00[AMR][1000 genomes]
rs13269584	1.00[AMR][1000 genomes]
rs13271956	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13273189	0.95[AMR][1000 genomes]
rs13273989	1.00[AMR][1000 genomes]
rs13276426	1.00[AMR][1000 genomes]
rs13276821	0.89[AMR][1000 genomes]
rs13281651	0.90[AMR][1000 genomes]
rs13282019	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16891667	0.82[AMR][1000 genomes]
rs17622577	1.00[AMR][1000 genomes]
rs17622732	0.90[AMR][1000 genomes]
rs34044853	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34143633	1.00[AMR][1000 genomes]
rs34152125	1.00[AMR][1000 genomes]
rs34210297	1.00[AMR][1000 genomes]
rs34242561	0.95[AMR][1000 genomes]
rs34320052	1.00[AMR][1000 genomes]
rs34550994	1.00[AMR][1000 genomes]
rs34582788	1.00[AMR][1000 genomes]
rs34668583	0.89[AMR][1000 genomes]
rs34742882	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34920666	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35168459	1.00[AMR][1000 genomes]
rs35258203	0.94[AMR][1000 genomes]
rs35316170	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35390123	1.00[AMR][1000 genomes]
rs35441746	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35444991	0.84[AMR][1000 genomes]
rs35491765	1.00[AMR][1000 genomes]
rs35823486	1.00[AMR][1000 genomes]
rs35959188	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35970125	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs36026629	1.00[AMR][1000 genomes]
rs62515908	0.89[AMR][1000 genomes]
rs62515909	0.89[AMR][1000 genomes]
rs62515910	0.89[AMR][1000 genomes]
rs62515912	1.00[AMR][1000 genomes]
rs62515913	1.00[AMR][1000 genomes]
rs62515916	1.00[AMR][1000 genomes]
rs62515917	1.00[AMR][1000 genomes]
rs62515919	1.00[AMR][1000 genomes]
rs62515920	0.90[AMR][1000 genomes]
rs62515948	1.00[AMR][1000 genomes]
rs62515952	1.00[AMR][1000 genomes]
rs62517590	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62517594	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62517595	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62517599	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62517604	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62517605	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62517626	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890846	chr8:42625663-43240123	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	86 gene(s)	inside rSNPs	diseases
2	nsv1024688	chr8:42709414-43333639	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
3	nsv539563	chr8:42709414-43333639	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
4	nsv1033927	chr8:42748842-43575771	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
5	nsv533812	chr8:42755447-43528350	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
6	nsv1032781	chr8:42772394-43461484	ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
7	nsv1021281	chr8:42807619-43472678	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
8	nsv429912	chr8:42852444-43701143	ZNF genes & repeats Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
9	nsv869499	chr8:42858608-43541986	Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
10	nsv916847	chr8:42858611-43541984	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
11	nsv1027779	chr8:42863024-43729296	Strong transcription ZNF genes & repeats Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
12	nsv1025336	chr8:42905623-43333638	ZNF genes & repeats Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
13	nsv539564	chr8:42905623-43333638	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
14	nsv831302	chr8:42909483-43105520	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
15	nsv1029380	chr8:42924737-43729296	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
16	nsv539565	chr8:42924737-43729296	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
17	nsv1021734	chr8:42936943-43824036	Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
18	nsv470208	chr8:42937608-43791691	Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
19	nsv1021100	chr8:42938287-43333639	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
20	nsv539566	chr8:42938287-43333639	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
21	nsv1035031	chr8:42940043-43575771	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
22	nsv1031842	chr8:42940043-43729296	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
23	nsv532469	chr8:42970273-43528350	Weak transcription Strong transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62517606	FNTA	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:42956800-42987400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr8:42957800-42986800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr8:42969200-42986000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr8:42969200-42986600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
5	chr8:42969600-42985200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr8:42969800-42984800	ZNF genes & repeats	Dnd41	blood
7	chr8:42973800-42981800	ZNF genes & repeats	Fetal Intestine Small	intestine
8	chr8:42973800-42984000	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
9	chr8:42974400-42984600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
10	chr8:42975200-42982000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
11	chr8:42975200-42985200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
12	chr8:42975200-42987400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr8:42975400-42984000	ZNF genes & repeats	Brain Germinal Matrix	brain
14	chr8:42975400-42987000	ZNF genes & repeats	Fetal Muscle Leg	muscle
15	chr8:42976000-42986600	ZNF genes & repeats	Fetal Brain Female	brain
16	chr8:42976200-42982200	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
17	chr8:42976200-42982400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
18	chr8:42976200-42983800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr8:42976200-42985000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
20	chr8:42976400-42983600	ZNF genes & repeats	A549	lung
21	chr8:42976400-42984200	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
22	chr8:42976400-42986400	Strong transcription	Stomach Smooth Muscle	stomach
23	chr8:42976400-42986600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr8:42976600-42981800	Strong transcription	Brain Angular Gyrus	brain
25	chr8:42976600-42981800	ZNF genes & repeats	Fetal Stomach	stomach
26	chr8:42976600-42981800	ZNF genes & repeats	Thymus	Thymus
27	chr8:42976600-42985200	ZNF genes & repeats	GM12878-XiMat	blood
28	chr8:42976800-42981800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
29	chr8:42976800-42981800	ZNF genes & repeats	K562	blood
30	chr8:42976800-42982000	Strong transcription	Rectal Smooth Muscle	rectum
31	chr8:42976800-42983000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
32	chr8:42976800-42984000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr8:42976800-42986800	ZNF genes & repeats	Fetal Lung	lung
34	chr8:42977000-42984000	ZNF genes & repeats	Placenta	Placenta
35	chr8:42977200-42984000	ZNF genes & repeats	Primary B cells from cord blood	blood
36	chr8:42977400-42982000	ZNF genes & repeats	NHEK	skin
37	chr8:42977400-42982800	ZNF genes & repeats	Primary T cells from cord blood	blood
38	chr8:42977400-42982800	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
39	chr8:42977600-42981800	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
40	chr8:42977600-42982200	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
41	chr8:42977600-42983400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
42	chr8:42977600-42984000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
43	chr8:42977600-42984000	ZNF genes & repeats	Fetal Intestine Large	intestine
44	chr8:42977800-42982400	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
45	chr8:42977800-42982600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr8:42978000-42981800	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
47	chr8:42978000-42982400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr8:42978000-42983000	ZNF genes & repeats	Primary B cells from peripheral blood	blood
49	chr8:42978000-42984200	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
50	chr8:42978400-42982600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links