Variant report

Variant	rs3176785
Chromosome Location	chr12:9913485-9913486
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:9913275..9915086-chr12:10364378..10366451,2	K562	blood:
2	chr12:9911685..9913849-chr12:10017850..10019855,2	K562	blood:
3	chr12:9913257..9914775-chr12:10363988..10366451,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CD69-1	chr12:9913353-9913497	NONHSAT026849
2	lnc-CD69-1	chr12:9913353-9913497	NONHSAT026848

Variant related genes	Relation type
ENSG00000255882	Chromatin interaction
ENSG00000139112	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11829217	1.00[AFR][1000 genomes]
rs11829361	0.91[AFR][1000 genomes]
rs11830098	0.92[AFR][1000 genomes]
rs11832194	0.92[AFR][1000 genomes]
rs11833226	1.00[AFR][1000 genomes]
rs11834929	1.00[AFR][1000 genomes]
rs3176783	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758293	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
2	esv2759878	chr12:9371595-9923529	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:9903400-9917600	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr12:9909000-9914800	Active TSS	Thymus	Thymus
3	chr12:9909600-9914200	Active TSS	Primary T killer memory cells from peripheral blood	blood
4	chr12:9909800-9914000	Active TSS	K562	blood
5	chr12:9909800-9914400	Active TSS	Primary T cells fromperipheralblood	blood
6	chr12:9910200-9914200	Active TSS	Rectal Mucosa Donor 29	rectum
7	chr12:9910400-9913600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr12:9910400-9914000	Active TSS	Primary T killer naive cells fromperipheralblood	blood
9	chr12:9910400-9914400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
10	chr12:9910400-9914400	Active TSS	Primary T helper naive cells from peripheral blood	blood
11	chr12:9910600-9913600	Active TSS	Primary hematopoietic stem cells short term culture	blood
12	chr12:9910600-9913600	Active TSS	Primary T regulatory cells fromperipheralblood	blood
13	chr12:9910600-9914400	Active TSS	Primary T cells from cord blood	blood
14	chr12:9910600-9914400	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
15	chr12:9911000-9913800	Active TSS	Rectal Mucosa Donor 31	rectum
16	chr12:9911000-9914000	Active TSS	Duodenum Mucosa	Duodenum
17	chr12:9911200-9913600	Active TSS	Primary T helper cells fromperipheralblood	blood
18	chr12:9911200-9913600	Active TSS	Rectal Smooth Muscle	rectum
19	chr12:9911200-9913600	Active TSS	GM12878-XiMat	blood
20	chr12:9911400-9913600	Active TSS	Primary B cells from peripheral blood	blood
21	chr12:9911400-9913600	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr12:9911400-9913600	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr12:9912000-9914200	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr12:9912600-9914000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
25	chr12:9912800-9913600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr12:9912800-9913800	Active TSS	Adipose Nuclei	Adipose
27	chr12:9912800-9914200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
28	chr12:9912800-9915000	Flanking Active TSS	Dnd41	blood
29	chr12:9913000-9916000	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr12:9913200-9913600	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr12:9913200-9913800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
32	chr12:9913200-9914600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr12:9913400-9913800	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr12:9913400-9913800	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr12:9913400-9913800	Flanking Active TSS	HUVEC	blood vessel
36	chr12:9913400-9914000	Enhancers	Placenta	Placenta
37	chr12:9913400-9914000	Flanking Active TSS	Fetal Thymus	thymus
38	chr12:9913400-9914200	Active TSS	Primary T helper cells PMA-I stimulated	--
39	chr12:9913400-9914400	Flanking Active TSS	Primary B cells from cord blood	blood
40	chr12:9913400-9914600	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
41	chr12:9913400-9914800	Flanking Active TSS	Primary hematopoietic stem cells	blood

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