Variant report

Variant	rs339449
Chromosome Location	chr12:117163293-117163294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:117160120..117163507-chr12:117174377..117177352,4	MCF-7	breast:
2	chr12:117157072..117160218-chr12:117161529..117164400,4	K562	blood:
3	chr12:117151206..117153398-chr12:117162131..117164765,2	K562	blood:

Variant related genes	Relation type
ENSG00000135119	Chromatin interaction
ENSG00000111412	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10850707	1.00[CHB][hapmap]
rs11068163	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11068167	0.86[EUR][1000 genomes]
rs11836095	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1532395	1.00[CHB][hapmap]
rs1566018	1.00[ASN][1000 genomes]
rs180304	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs180305	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2644692	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339451	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339452	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339454	1.00[CHB][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339456	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs339459	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7300541	1.00[CHB][hapmap]
rs7312638	1.00[CHB][hapmap]

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	nsv832523	chr12:117090343-117273810	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:117147200-117174000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr12:117147400-117173600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr12:117148600-117164200	Weak transcription	Stomach Mucosa	stomach
4	chr12:117149400-117174000	Weak transcription	K562	blood
5	chr12:117149600-117164200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr12:117150800-117172600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr12:117154800-117170600	Weak transcription	Hela-S3	cervix
8	chr12:117156200-117165000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr12:117157200-117164400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr12:117157200-117170600	Weak transcription	NHDF-Ad	bronchial
11	chr12:117157200-117170600	Weak transcription	Osteobl	bone
12	chr12:117157600-117164200	Weak transcription	Small Intestine	intestine
13	chr12:117157800-117174000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr12:117158000-117164200	Weak transcription	HUVEC	blood vessel
15	chr12:117158000-117170600	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr12:117158200-117164200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr12:117158200-117164800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr12:117158200-117172000	Weak transcription	Stomach Smooth Muscle	stomach
19	chr12:117158200-117172000	Weak transcription	NH-A	brain
20	chr12:117158400-117164400	Weak transcription	Brain Anterior Caudate	brain
21	chr12:117158400-117164600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr12:117158400-117164600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr12:117158400-117164600	Weak transcription	Brain Angular Gyrus	brain
24	chr12:117158400-117164600	Weak transcription	Pancreas	Pancrea
25	chr12:117158400-117165000	Weak transcription	Fetal Brain Female	brain
26	chr12:117158400-117172200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr12:117158400-117174000	Weak transcription	Psoas Muscle	Psoas
28	chr12:117158400-117174600	Weak transcription	Colon Smooth Muscle	Colon
29	chr12:117158600-117164400	Weak transcription	Brain Cingulate Gyrus	brain
30	chr12:117158600-117164400	Weak transcription	Brain Substantia Nigra	brain
31	chr12:117158600-117164600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr12:117158600-117164600	Weak transcription	Right Ventricle	heart
33	chr12:117158600-117164800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr12:117158600-117172000	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr12:117158600-117172600	Weak transcription	Rectal Smooth Muscle	rectum
36	chr12:117158600-117174200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
37	chr12:117158600-117174400	Weak transcription	Esophagus	oesophagus
38	chr12:117159000-117172000	Weak transcription	HMEC	breast
39	chr12:117159000-117174000	Weak transcription	Fetal Brain Male	brain
40	chr12:117159200-117164200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr12:117159200-117169000	Weak transcription	Fetal Stomach	stomach
42	chr12:117159200-117169200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr12:117159200-117174000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr12:117159400-117164400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr12:117159400-117165200	Weak transcription	Brain Germinal Matrix	brain
46	chr12:117159800-117164400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
47	chr12:117159800-117172000	Weak transcription	HSMMtube	muscle
48	chr12:117159800-117172200	Weak transcription	NHLF	lung
49	chr12:117160000-117166200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr12:117160000-117174000	Weak transcription	Colonic Mucosa	Colon

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