Variant report

Variant	rs7848647
Chromosome Location	chr9:117569046-117569047
allele	C/T
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	RELA	chr9:117568438-117569101	GM19099	blood:	n/a	chr9:117568607-117568616 chr9:117568607-117568616

Variant related genes	Relation type
TNFSF15	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10114470	0.92[AFR][1000 genomes]
rs10817678	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3810936	0.88[ASW][hapmap];0.93[LWK][hapmap];0.81[MEX][hapmap];0.92[AFR][1000 genomes]
rs4246905	0.84[MEX][hapmap]
rs4263839	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4366152	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4372078	0.81[CEU][hapmap];0.82[CHB][hapmap];0.81[EUR][1000 genomes]
rs6478108	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.97[TSI][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6478109	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831695	chr9:117567626-117726247	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7848647	DNAJC25	cis	parietal	SCAN

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:117565000-117569400	Enhancers	Fetal Lung	lung
2	chr9:117565200-117569800	Enhancers	Sigmoid Colon	Sigmoid Colon
3	chr9:117566200-117569600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr9:117566400-117569200	Enhancers	NH-A	brain
5	chr9:117566800-117569200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
6	chr9:117567600-117569200	Enhancers	Placenta Amnion	Placenta Amnion
7	chr9:117567800-117569400	Flanking Active TSS	Primary B cells from cord blood	blood
8	chr9:117567800-117572000	Enhancers	Primary B cells from peripheral blood	blood
9	chr9:117568000-117569200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr9:117568000-117569200	Enhancers	Primary T cells from cord blood	blood
11	chr9:117568000-117569200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
12	chr9:117568000-117569400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr9:117568000-117569400	Enhancers	Fetal Thymus	thymus
14	chr9:117568000-117569400	Enhancers	Thymus	Thymus
15	chr9:117568000-117569600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr9:117568000-117569600	Enhancers	Fetal Muscle Leg	muscle
17	chr9:117568000-117569800	Enhancers	Primary T cells fromperipheralblood	blood
18	chr9:117568000-117569800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr9:117568000-117569800	Enhancers	Primary T helper cells fromperipheralblood	blood
20	chr9:117568000-117569800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr9:117568000-117569800	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr9:117568000-117569800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
23	chr9:117568000-117569800	Enhancers	Pancreas	Pancrea
24	chr9:117568200-117569400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr9:117568200-117569600	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr9:117568200-117570000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
27	chr9:117568400-117569200	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr9:117568400-117569200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr9:117568400-117569200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
30	chr9:117568400-117569200	Enhancers	Placenta	Placenta
31	chr9:117568400-117569200	Enhancers	Fetal Stomach	stomach
32	chr9:117568400-117569200	Weak transcription	Lung	lung
33	chr9:117568400-117569200	Enhancers	Hela-S3	cervix
34	chr9:117568400-117569600	Enhancers	Esophagus	oesophagus
35	chr9:117568400-117569600	Enhancers	Spleen	Spleen
36	chr9:117568400-117569800	Enhancers	Fetal Intestine Large	intestine
37	chr9:117568400-117569800	Enhancers	Psoas Muscle	Psoas
38	chr9:117568400-117569800	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr9:117568400-117569800	Enhancers	Stomach Mucosa	stomach
40	chr9:117568400-117570200	Enhancers	Fetal Intestine Small	intestine
41	chr9:117568400-117571200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr9:117568600-117569200	Flanking Active TSS	GM12878-XiMat	blood
43	chr9:117568600-117569800	Enhancers	Fetal Kidney	kidney
44	chr9:117568800-117569200	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr9:117568800-117569200	Enhancers	iPS-20b Cell Line	embryonic stem cell
46	chr9:117568800-117569200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr9:117568800-117569200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr9:117568800-117569200	Enhancers	HSMMtube	muscle
49	chr9:117568800-117569400	Enhancers	Primary hematopoietic stem cells	blood
50	chr9:117568800-117569400	Enhancers	Gastric	stomach

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