Variant report

Variant	rs11180999
Chromosome Location	chr12:41946924-41946925
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs1026464	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs10785265	0.81[CHB][hapmap]
rs10880075	0.81[EUR][1000 genomes]
rs10880076	0.81[EUR][1000 genomes]
rs10880094	0.83[CHB][hapmap]
rs11180934	0.86[CEU][hapmap]
rs11180990	0.82[CHB][hapmap]
rs11181001	0.93[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1155220	0.81[EUR][1000 genomes]
rs1160183	0.80[CEU][hapmap]
rs1160184	0.81[EUR][1000 genomes]
rs1160748	0.80[EUR][1000 genomes]
rs1160749	0.80[EUR][1000 genomes]
rs1350429	0.81[EUR][1000 genomes]
rs1379758	0.84[EUR][1000 genomes]
rs1379759	0.84[EUR][1000 genomes]
rs1379760	0.84[EUR][1000 genomes]
rs1379761	0.83[EUR][1000 genomes]
rs1379763	0.83[EUR][1000 genomes]
rs1379764	0.82[EUR][1000 genomes]
rs1379768	0.81[CHB][hapmap]
rs1379769	0.83[EUR][1000 genomes]
rs1379770	0.83[EUR][1000 genomes]
rs1379771	0.83[EUR][1000 genomes]
rs1379772	0.83[EUR][1000 genomes]
rs1379773	0.81[EUR][1000 genomes]
rs1379774	0.84[EUR][1000 genomes]
rs1379776	0.80[EUR][1000 genomes]
rs1458156	0.89[CEU][hapmap];0.81[CHB][hapmap];0.90[EUR][1000 genomes]
rs1458157	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1458158	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs1458159	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs1458160	0.87[EUR][1000 genomes]
rs1458166	0.80[EUR][1000 genomes]
rs1458167	0.81[EUR][1000 genomes]
rs1458168	0.81[EUR][1000 genomes]
rs1471161	0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs1471162	0.81[EUR][1000 genomes]
rs1471163	0.81[EUR][1000 genomes]
rs1551593	0.81[EUR][1000 genomes]
rs1551595	0.80[EUR][1000 genomes]
rs1551596	0.81[EUR][1000 genomes]
rs1598894	0.80[EUR][1000 genomes]
rs1841025	0.81[EUR][1000 genomes]
rs1870285	0.83[EUR][1000 genomes]
rs1870286	0.83[EUR][1000 genomes]
rs1902906	0.84[EUR][1000 genomes]
rs2034923	0.90[EUR][1000 genomes]
rs2122793	0.82[CHB][hapmap]
rs2125286	0.84[EUR][1000 genomes]
rs2125287	0.83[CEU][hapmap];0.84[EUR][1000 genomes]
rs2199028	0.87[EUR][1000 genomes]
rs2250003	0.84[EUR][1000 genomes]
rs2250009	0.84[EUR][1000 genomes]
rs2250908	0.80[EUR][1000 genomes]
rs2251259	0.80[EUR][1000 genomes]
rs2251349	0.80[EUR][1000 genomes]
rs2251683	0.81[EUR][1000 genomes]
rs2253528	0.87[EUR][1000 genomes]
rs2253633	0.84[EUR][1000 genomes]
rs2253634	0.86[EUR][1000 genomes]
rs2255035	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs2255145	0.83[EUR][1000 genomes]
rs2255152	0.83[EUR][1000 genomes]
rs2255404	0.84[EUR][1000 genomes]
rs2256412	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2264905	0.81[EUR][1000 genomes]
rs2405920	0.84[EUR][1000 genomes]
rs2405921	0.84[EUR][1000 genomes]
rs2446143	0.81[EUR][1000 genomes]
rs2446144	0.81[EUR][1000 genomes]
rs2468310	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2468314	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs2468315	0.85[EUR][1000 genomes]
rs2468316	0.84[EUR][1000 genomes]
rs2468317	0.84[EUR][1000 genomes]
rs2608689	0.84[EUR][1000 genomes]
rs2608690	0.84[EUR][1000 genomes]
rs2608691	0.83[EUR][1000 genomes]
rs2608692	0.84[EUR][1000 genomes]
rs2608696	0.83[EUR][1000 genomes]
rs2608697	0.83[EUR][1000 genomes]
rs2608701	0.81[EUR][1000 genomes]
rs2608702	0.83[EUR][1000 genomes]
rs2608704	0.81[CEU][hapmap];0.83[EUR][1000 genomes]
rs2608705	0.83[EUR][1000 genomes]
rs2608706	0.83[EUR][1000 genomes]
rs2608707	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs2608708	0.82[EUR][1000 genomes]
rs2608710	0.80[EUR][1000 genomes]
rs2608711	0.84[EUR][1000 genomes]
rs2608714	0.84[EUR][1000 genomes]
rs2608715	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs2608716	0.85[EUR][1000 genomes]
rs2608718	0.84[EUR][1000 genomes]
rs2710264	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2710265	0.87[ASN][1000 genomes]
rs2730802	0.83[EUR][1000 genomes]
rs2730803	0.89[CEU][hapmap];0.81[CHB][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2730805	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs2730807	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs2730809	0.81[EUR][1000 genomes]
rs2730810	0.81[EUR][1000 genomes]
rs2730811	0.80[EUR][1000 genomes]
rs2730814	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs2730817	0.80[EUR][1000 genomes]
rs2730819	0.81[EUR][1000 genomes]
rs2730820	0.81[EUR][1000 genomes]
rs2730821	0.81[EUR][1000 genomes]
rs2730822	0.80[EUR][1000 genomes]
rs2730824	0.84[EUR][1000 genomes]
rs2730827	0.87[EUR][1000 genomes]
rs2730828	0.81[EUR][1000 genomes]
rs2730829	0.81[EUR][1000 genomes]
rs2730830	0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs2733274	0.81[EUR][1000 genomes]
rs2733275	0.87[EUR][1000 genomes]
rs2733276	0.85[EUR][1000 genomes]
rs2733278	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs2733280	0.86[EUR][1000 genomes]
rs2733282	0.80[EUR][1000 genomes]
rs2733284	0.95[CHB][hapmap];0.91[JPT][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2733285	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2733287	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs2733290	0.81[EUR][1000 genomes]
rs2733297	0.80[EUR][1000 genomes]
rs2733298	0.83[EUR][1000 genomes]
rs2733299	0.84[EUR][1000 genomes]
rs285556	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs285557	0.89[ASN][1000 genomes]
rs285560	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs285575	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs285590	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs285592	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs285593	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs285595	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2957590	0.81[EUR][1000 genomes]
rs437178	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4768354	0.81[EUR][1000 genomes]
rs7954518	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs897973	0.81[EUR][1000 genomes]
rs981012	0.81[EUR][1000 genomes]
rs981014	0.81[EUR][1000 genomes]
rs996356	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832384	chr12:41772648-41971430	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv3337301	chr12:41851654-42093677	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv899040	chr12:41905897-42181706	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41925600-41949800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr12:41942800-41956800	Weak transcription	Colon Smooth Muscle	Colon
3	chr12:41944600-41966200	Weak transcription	Ovary	ovary
4	chr12:41945400-41956800	Weak transcription	Aorta	Aorta
5	chr12:41945600-41947200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr12:41946400-41947000	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr12:41946400-41947200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr12:41946400-41947200	Flanking Active TSS	Brain Germinal Matrix	brain
9	chr12:41946400-41947200	Enhancers	Fetal Brain Male	brain
10	chr12:41946400-41947400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr12:41946600-41947200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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