Variant report

Variant	rs41129
Chromosome Location	chr5:107445554-107445555
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs12515105	0.80[CHB][hapmap]
rs12523367	0.81[CHB][hapmap]
rs149457	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs15158	1.00[CEU][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs158173	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs158175	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs158186	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158283	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs158285	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs158604	0.86[CEU][hapmap]
rs158605	0.86[CEU][hapmap]
rs158606	0.83[CEU][hapmap]
rs158609	0.84[CEU][hapmap]
rs17161080	0.81[CHB][hapmap]
rs185361	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs188274	0.86[EUR][1000 genomes]
rs286741	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286743	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286744	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286749	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes]
rs286750	0.91[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes]
rs286753	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs286771	0.84[CEU][hapmap]
rs286776	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs286777	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs286779	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs286781	0.91[EUR][1000 genomes]
rs286802	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286809	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286818	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs288131	1.00[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288139	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs288143	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes]
rs288144	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288145	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs288146	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs288147	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs288149	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288151	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288152	0.87[EUR][1000 genomes]
rs288154	1.00[CEU][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288157	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs288161	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs288164	1.00[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs288168	0.85[EUR][1000 genomes]
rs288169	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs288170	0.81[EUR][1000 genomes]
rs288171	1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs288172	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs288173	1.00[CEU][hapmap]
rs288180	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs288183	0.81[JPT][hapmap]
rs288228	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs288230	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs288232	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs288233	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs288237	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs288238	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs289227	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs289228	1.00[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs289230	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs2900122	0.85[CEU][hapmap]
rs34383	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34388	0.86[CEU][hapmap]
rs34415	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34422	0.85[CEU][hapmap]
rs34423	0.92[CEU][hapmap]
rs34424	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs34427	0.91[CEU][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34428	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34432	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs365981	0.81[EUR][1000 genomes]
rs370216	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs372894	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs40067	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs40070	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs40071	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs406139	0.81[EUR][1000 genomes]
rs41131	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs457378	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][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	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107437800-107446000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr5:107437800-107447600	Weak transcription	Right Atrium	heart
4	chr5:107437800-107463800	Weak transcription	Esophagus	oesophagus
5	chr5:107438400-107446000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:107438400-107447600	Weak transcription	Pancreas	Pancrea
7	chr5:107438400-107448800	Weak transcription	Left Ventricle	heart
8	chr5:107440000-107445800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr5:107440600-107450200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr5:107441200-107455000	Weak transcription	Psoas Muscle	Psoas
11	chr5:107441800-107457400	Weak transcription	Primary hematopoietic stem cells	blood
12	chr5:107445400-107448000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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