Variant report

Variant	rs34417
Chromosome Location	chr5:107426900-107426901
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs158171	0.85[CEU][hapmap]
rs158174	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs158176	0.82[EUR][1000 genomes]
rs158177	0.90[CEU][hapmap];0.86[JPT][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes]
rs158178	0.90[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs158180	0.84[EUR][1000 genomes]
rs158182	0.90[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs158183	0.84[EUR][1000 genomes]
rs158184	0.84[EUR][1000 genomes]
rs158185	0.90[CEU][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs158187	0.82[EUR][1000 genomes]
rs158189	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs169640	0.81[TSI][hapmap]
rs192617	0.83[EUR][1000 genomes]
rs286740	0.85[CEU][hapmap]
rs286742	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs286748	0.86[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs286752	0.85[EUR][1000 genomes]
rs286757	0.82[EUR][1000 genomes]
rs286778	0.83[CEU][hapmap];0.86[JPT][hapmap]
rs286783	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs286786	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs286788	0.84[CEU][hapmap];0.84[EUR][1000 genomes]
rs286790	0.85[EUR][1000 genomes]
rs286796	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs286797	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs286798	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs286801	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs286803	0.92[EUR][1000 genomes]
rs286804	0.85[CEU][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs286807	0.83[EUR][1000 genomes]
rs286810	0.90[CEU][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs286811	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs286812	1.00[CEU][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs286814	0.90[CEU][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes]
rs286816	0.94[CEU][hapmap];0.82[JPT][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs286819	0.92[EUR][1000 genomes]
rs286820	0.90[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.94[LWK][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs288130	0.83[EUR][1000 genomes]
rs288140	0.86[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs288148	0.83[EUR][1000 genomes]
rs288150	0.83[EUR][1000 genomes]
rs288153	0.84[EUR][1000 genomes]
rs288155	0.84[EUR][1000 genomes]
rs288156	0.83[EUR][1000 genomes]
rs288158	0.81[EUR][1000 genomes]
rs288162	0.83[EUR][1000 genomes]
rs288163	0.84[EUR][1000 genomes]
rs288165	0.82[EUR][1000 genomes]
rs288166	0.82[EUR][1000 genomes]
rs288167	0.83[EUR][1000 genomes]
rs288182	0.81[TSI][hapmap]
rs289234	0.85[EUR][1000 genomes]
rs2909879	0.86[GIH][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes]
rs2909880	0.86[EUR][1000 genomes]
rs2909882	0.86[GIH][hapmap];0.85[TSI][hapmap];0.82[EUR][1000 genomes]
rs34386	0.83[TSI][hapmap]
rs34387	0.83[TSI][hapmap]
rs34411	0.89[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs34412	0.82[EUR][1000 genomes]
rs34416	0.94[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs34418	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes]
rs34425	0.86[JPT][hapmap]
rs34429	0.83[EUR][1000 genomes]
rs34430	1.00[CEU][hapmap];0.86[JPT][hapmap];0.96[EUR][1000 genomes]
rs34431	0.89[EUR][1000 genomes]
rs40062	1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs40063	0.90[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs40065	0.83[TSI][hapmap]
rs40066	0.83[TSI][hapmap]
rs40072	1.00[CEU][hapmap];0.86[JPT][hapmap];0.96[EUR][1000 genomes]
rs455394	0.85[EUR][1000 genomes]
rs502790	0.86[GIH][hapmap];0.85[TSI][hapmap];0.85[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	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:22 , 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	chr5:107416800-107427400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr5:107419200-107436600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr5:107420000-107433000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:107420200-107427800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr5:107421400-107437000	Weak transcription	Psoas Muscle	Psoas
10	chr5:107426000-107428200	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr5:107426600-107427400	Active TSS	Pancreatic Islets	Pancreatic Islet
12	chr5:107426600-107428000	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr5:107426600-107428200	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr5:107426600-107429400	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr5:107426600-107429400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr5:107426800-107427000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr5:107426800-107427000	Active TSS	Fetal Lung	lung
18	chr5:107426800-107427200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr5:107426800-107427200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr5:107426800-107428400	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr5:107426800-107428600	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr5:107426800-107430800	Enhancers	HUES48 Cell Line	embryonic stem cell

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