Variant report

Variant	rs3827673
Chromosome Location	chr9:115936903-115936904
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:115912871..115915332-chr9:115935674..115937488,2	K562	blood:
2	chr9:115930303..115932387-chr9:115934929..115937094,2	K562	blood:
3	chr9:115935268..115937947-chr9:115939386..115941079,2	K562	blood:
4	chr9:115935810..115938271-chr9:115941276..115943911,2	K562	blood:

Variant related genes	Relation type
ENSG00000136867	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10817452	0.85[AFR][1000 genomes]
rs10817453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817456	0.87[AFR][1000 genomes]
rs10817458	0.90[AFR][1000 genomes]
rs10981666	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10981669	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981670	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10981671	1.00[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10981673	0.91[YRI][hapmap]
rs12380325	0.80[LWK][hapmap];0.87[YRI][hapmap]
rs34493639	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3810906	0.83[ASW][hapmap];0.81[LWK][hapmap];0.85[MKK][hapmap];0.82[YRI][hapmap];0.80[AFR][1000 genomes]
rs3810909	0.94[LWK][hapmap];0.88[MKK][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs3810911	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4073133	0.83[ASW][hapmap];0.85[MKK][hapmap];0.82[YRI][hapmap]
rs4483236	0.83[ASW][hapmap];0.81[LWK][hapmap];0.85[MKK][hapmap];0.82[YRI][hapmap]
rs4596714	0.90[AFR][1000 genomes]
rs6477995	0.87[AFR][1000 genomes]
rs7866724	0.87[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
4	nsv1035406	chr9:115883978-116003980	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540201	chr9:115883978-116003980	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv466507	chr9:115905850-115936903	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv615213	chr9:115905850-115936903	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
9	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
10	esv2647679	chr9:115936465-115937963	Weak transcription Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	esv2238231	chr9:115936894-115937590	Strong transcription Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3827673	FKBP15	cis	parietal	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115917800-115949400	Strong transcription	Placenta	Placenta
2	chr9:115918400-115947200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr9:115918800-115937000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:115919200-115937400	Strong transcription	HMEC	breast
5	chr9:115919200-115950800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr9:115919400-115937000	Strong transcription	Sigmoid Colon	Sigmoid Colon
7	chr9:115919400-115937200	Strong transcription	Fetal Stomach	stomach
8	chr9:115919400-115950800	Strong transcription	Primary T cells from cord blood	blood
9	chr9:115919400-115954200	Strong transcription	Fetal Intestine Large	intestine
10	chr9:115919600-115938000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr9:115919600-115938800	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr9:115919600-115940200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr9:115919800-115937000	Strong transcription	Fetal Muscle Leg	muscle
14	chr9:115919800-115939400	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr9:115920000-115939000	Strong transcription	Primary monocytes fromperipheralblood	blood
16	chr9:115920000-115942400	Strong transcription	Duodenum Mucosa	Duodenum
17	chr9:115920000-115950200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr9:115920000-115951400	Strong transcription	Fetal Muscle Trunk	muscle
19	chr9:115920000-115970200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr9:115920000-115973400	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr9:115920200-115956600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr9:115920400-115937200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr9:115920400-115973400	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr9:115920600-115937200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:115920600-115941600	Strong transcription	Rectal Mucosa Donor 31	rectum
26	chr9:115920800-115966400	Strong transcription	Dnd41	blood
27	chr9:115920800-115975000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr9:115921000-115937800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr9:115921800-115951000	Strong transcription	Fetal Thymus	thymus
30	chr9:115922400-115942000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr9:115922800-115956400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr9:115923000-115942200	Strong transcription	GM12878-XiMat	blood
33	chr9:115923000-115956200	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr9:115923200-115937000	Strong transcription	Lung	lung
35	chr9:115923200-115940800	Strong transcription	NHEK	skin
36	chr9:115923400-115941800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr9:115923400-115976400	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr9:115923600-115937000	Strong transcription	Colonic Mucosa	Colon
39	chr9:115923600-115937000	Strong transcription	Ovary	ovary
40	chr9:115923600-115937000	Strong transcription	Spleen	Spleen
41	chr9:115923600-115953600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr9:115923800-115937000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
43	chr9:115923800-115937000	Strong transcription	K562	blood
44	chr9:115923800-115937200	Strong transcription	HUVEC	blood vessel
45	chr9:115923800-115950600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr9:115923800-115951600	Strong transcription	HepG2	liver
47	chr9:115924000-115965800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr9:115924200-115937400	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr9:115924200-115969600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr9:115925200-115940800	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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