Variant report

Variant	rs35289
Chromosome Location	chr5:58662253-58662254
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10471469	0.83[AFR][1000 genomes]
rs10472106	1.00[GIH][hapmap];0.86[LWK][hapmap];0.94[MKK][hapmap];0.84[YRI][hapmap];0.83[AFR][1000 genomes]
rs12055306	0.84[YRI][hapmap];0.83[AFR][1000 genomes]
rs12697177	1.00[CHB][hapmap];0.80[JPT][hapmap];0.92[ASN][1000 genomes]
rs13153653	0.93[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs13176940	0.93[CHB][hapmap];0.85[CHD][hapmap];0.81[ASN][1000 genomes]
rs16889615	1.00[GIH][hapmap]
rs1823066	0.91[CHB][hapmap];0.87[ASN][1000 genomes]
rs1823067	0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1823068	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2028842	0.85[CEU][hapmap];0.90[EUR][1000 genomes]
rs2059175	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2547918	0.81[CHD][hapmap]
rs2547919	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs255812	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2591745	0.95[EUR][1000 genomes]
rs2591747	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2702363	0.81[CHD][hapmap];0.88[MEX][hapmap];0.85[AMR][1000 genomes]
rs2702365	0.92[CEU][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.81[MKK][hapmap];0.88[TSI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35288	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6450517	0.93[CHB][hapmap];0.87[ASN][1000 genomes]
rs6877927	1.00[CHB][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7723695	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023628	chr5:58557950-58757438	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv917274	chr5:58565291-58814374	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1030716	chr5:58636116-58718362	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1032732	chr5:58637179-58689010	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1022160	chr5:58645805-58689010	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv881704	chr5:58653383-58675538	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58653000-58669400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr5:58654400-58667000	Weak transcription	Fetal Intestine Large	intestine
3	chr5:58654600-58665400	Weak transcription	Fetal Muscle Leg	muscle
4	chr5:58654800-58665800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr5:58656200-58665400	Weak transcription	Psoas Muscle	Psoas
6	chr5:58658200-58663400	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr5:58659400-58663400	Weak transcription	Fetal Lung	lung
8	chr5:58659800-58665800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:58659800-58667200	Weak transcription	Fetal Intestine Small	intestine
10	chr5:58660200-58663400	Weak transcription	Brain Substantia Nigra	brain
11	chr5:58660600-58669200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr5:58661200-58662600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr5:58661600-58662600	Weak transcription	Colon Smooth Muscle	Colon
14	chr5:58661800-58662800	Enhancers	A549	lung
15	chr5:58661800-58663800	Enhancers	Fetal Heart	heart
16	chr5:58662000-58662400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr5:58662000-58662800	Weak transcription	Hela-S3	cervix
18	chr5:58662200-58662800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr5:58662200-58664000	Enhancers	Rectal Smooth Muscle	rectum

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