Variant report

Variant	rs16971028
Chromosome Location	chr17:33825907-33825908
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12451141	1.00[AFR][1000 genomes]
rs12453650	1.00[AFR][1000 genomes]
rs12601267	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16970988	1.00[ASW][hapmap];1.00[AFR][1000 genomes]
rs16971025	1.00[ASW][hapmap]
rs3785758	1.00[AFR][1000 genomes]
rs62078141	1.00[AFR][1000 genomes]
rs62078145	1.00[AFR][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
rs16971028	CCL5	cis	lymphoblastoid	seeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:33815800-33826000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr17:33816000-33826400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr17:33822200-33826600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr17:33823000-33826200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr17:33823000-33830400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr17:33823400-33828200	Genic enhancers	Primary T cells fromperipheralblood	blood
7	chr17:33823400-33835600	Weak transcription	GM12878-XiMat	blood
8	chr17:33823800-33828600	Weak transcription	Pancreas	Pancrea
9	chr17:33824200-33826000	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
10	chr17:33824200-33827200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr17:33824200-33834800	Weak transcription	Spleen	Spleen
12	chr17:33824400-33827600	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr17:33824800-33826200	Bivalent Enhancer	Fetal Thymus	thymus
14	chr17:33824800-33826800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
15	chr17:33824800-33829000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr17:33825000-33826200	Bivalent Enhancer	Fetal Stomach	stomach
17	chr17:33825000-33828800	Strong transcription	Dnd41	blood
18	chr17:33825200-33826000	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
19	chr17:33825400-33826000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
20	chr17:33825400-33826000	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr17:33825400-33827600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr17:33825600-33826000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
23	chr17:33825600-33826200	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
24	chr17:33825600-33826200	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr17:33825600-33826800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr17:33825800-33826200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
27	chr17:33825800-33826200	Bivalent Enhancer	Primary T cells from cord blood	blood
28	chr17:33825800-33826400	Bivalent Enhancer	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links