Variant report

Variant	rs9898870
Chromosome Location	chr17:33816226-33816227
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11651218	1.00[ASN][1000 genomes]
rs11654381	1.00[ASN][1000 genomes]
rs11657050	1.00[ASN][1000 genomes]
rs12949518	1.00[ASN][1000 genomes]
rs1838148	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34658850	1.00[ASN][1000 genomes]
rs35077171	1.00[ASN][1000 genomes]
rs55990593	1.00[ASN][1000 genomes]
rs62078112	1.00[ASN][1000 genomes]
rs72825924	1.00[ASN][1000 genomes]
rs72825932	1.00[ASN][1000 genomes]
rs72825958	1.00[ASN][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	nsv1055936	chr17:33327166-33884184	Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
2	nsv543317	chr17:33327166-33884184	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	112 gene(s)	inside rSNPs	diseases
3	nsv534371	chr17:33456878-34094068	Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
4	nsv574741	chr17:33552275-33827134	Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	72 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9898870	SLFN13	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:33812800-33820400	Strong transcription	Dnd41	blood
2	chr17:33814000-33816400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
3	chr17:33815000-33820000	Weak transcription	Gastric	stomach
4	chr17:33815400-33816600	Bivalent Enhancer	Fetal Muscle Leg	muscle
5	chr17:33815400-33817400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
6	chr17:33815400-33817400	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
7	chr17:33815400-33817400	Bivalent Enhancer	Fetal Thymus	thymus
8	chr17:33815400-33817800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr17:33815600-33816600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr17:33815600-33817400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
11	chr17:33815600-33817400	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
12	chr17:33815600-33817800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr17:33815800-33816400	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr17:33815800-33816400	Enhancers	Primary T killer memory cells from peripheral blood	blood
15	chr17:33815800-33816600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr17:33815800-33816600	ZNF genes & repeats	Spleen	Spleen
17	chr17:33815800-33816800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr17:33815800-33826000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr17:33816000-33816400	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
20	chr17:33816000-33826400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr17:33816200-33816400	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
22	chr17:33816200-33816400	Genic enhancers	Primary T cells fromperipheralblood	blood
23	chr17:33816200-33816400	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr17:33816200-33816400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
25	chr17:33816200-33816400	Bivalent Enhancer	Colon Smooth Muscle	Colon
26	chr17:33816200-33816400	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
27	chr17:33816200-33816400	Bivalent Enhancer	Fetal Kidney	kidney
28	chr17:33816200-33816600	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
29	chr17:33816200-33816600	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
30	chr17:33816200-33816600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr17:33816200-33817200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
32	chr17:33816200-33820000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links