Variant report

Variant	rs41131
Chromosome Location	chr5:107427637-107427638
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs12515105	0.81[CHB][hapmap]
rs12523367	0.82[CHB][hapmap]
rs149457	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs15158	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs158172	0.84[ASN][1000 genomes]
rs158173	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs158175	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs158186	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158283	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs158285	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17161080	0.82[CHB][hapmap]
rs188274	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs286741	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs286743	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs286744	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs286749	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs286750	0.83[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs286753	0.90[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs286776	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs286777	0.83[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs286779	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs286781	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs286802	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs286809	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs286818	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs288131	0.91[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes]
rs288139	0.90[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs288143	0.91[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs288144	0.91[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.87[EUR][1000 genomes]
rs288145	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs288146	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs288147	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs288149	0.87[EUR][1000 genomes]
rs288151	0.87[EUR][1000 genomes]
rs288152	0.87[EUR][1000 genomes]
rs288154	0.92[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs288157	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs288161	0.92[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs288164	0.91[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs288168	0.86[EUR][1000 genomes]
rs288169	0.89[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes]
rs288170	0.81[EUR][1000 genomes]
rs288171	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs288172	0.91[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.84[EUR][1000 genomes]
rs288173	0.91[CEU][hapmap]
rs288180	0.91[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap]
rs288183	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs288228	0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs288230	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs288232	0.91[CEU][hapmap];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs288233	0.87[EUR][1000 genomes]
rs288237	0.90[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs288238	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs289227	0.91[CEU][hapmap];0.90[CHB][hapmap];0.81[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs289228	0.92[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs289230	0.94[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs34383	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34415	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34423	0.85[CEU][hapmap]
rs34424	0.82[CEU][hapmap]
rs34427	0.83[CEU][hapmap];0.86[JPT][hapmap]
rs34428	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs34432	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs370216	0.87[EUR][1000 genomes]
rs372894	0.87[EUR][1000 genomes]
rs40067	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs40070	0.84[CEU][hapmap]
rs40071	0.85[CEU][hapmap]
rs41129	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs457378	0.82[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][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	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
3	nsv1029650	chr5:107370079-107435314	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 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	chr5:107403800-107429800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr5:107414800-107427800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr5:107416000-107443600	Weak transcription	Primary T cells from cord blood	blood
5	chr5:107419200-107436600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr5:107420000-107433000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:107420200-107427800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr5:107421400-107437000	Weak transcription	Psoas Muscle	Psoas
9	chr5:107426000-107428200	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr5:107426600-107428000	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr5:107426600-107428200	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr5:107426600-107429400	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr5:107426600-107429400	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr5:107426800-107428400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr5:107426800-107428600	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr5:107426800-107430800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr5:107427200-107428200	Enhancers	H1 Cell Line	embryonic stem cell
18	chr5:107427200-107432200	Weak transcription	Fetal Lung	lung
19	chr5:107427400-107428000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr5:107427400-107443800	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr5:107427600-107429400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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