Variant report

Variant	rs28424104
Chromosome Location	chr5:58753871-58753872
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10514863	0.92[ASN][1000 genomes]
rs1156029	0.88[ASN][1000 genomes]
rs12514658	0.90[ASN][1000 genomes]
rs1506557	0.90[ASN][1000 genomes]
rs16889876	0.92[ASN][1000 genomes]
rs16889882	0.92[ASN][1000 genomes]
rs16889883	0.92[ASN][1000 genomes]
rs16889885	0.92[ASN][1000 genomes]
rs16889896	0.90[ASN][1000 genomes]
rs1848059	0.90[ASN][1000 genomes]
rs1848060	0.90[ASN][1000 genomes]
rs2034893	0.89[ASN][1000 genomes]
rs28508065	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs28571683	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28706428	0.95[ASN][1000 genomes]
rs72767785	0.90[ASN][1000 genomes]
rs73758981	0.83[AMR][1000 genomes]
rs73761526	0.83[AMR][1000 genomes]
rs7709897	0.86[ASN][1000 genomes]
rs7723289	1.00[AMR][1000 genomes]
rs7724786	0.90[ASN][1000 genomes]
rs931855	0.90[ASN][1000 genomes]
rs992726	1.00[ASN][1000 genomes]
rs9942415	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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	nsv1028022	chr5:58673780-58786468	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1034656	chr5:58674724-58755580	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv598253	chr5:58675538-58754510	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv598254	chr5:58715782-58923601	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv881706	chr5:58730111-58865857	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv881707	chr5:58741491-58784102	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58709800-58756800	Weak transcription	Aorta	Aorta
2	chr5:58716000-58756600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr5:58731800-58764800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:58735800-58756400	Weak transcription	Psoas Muscle	Psoas
5	chr5:58746000-58754200	Weak transcription	Fetal Brain Female	brain
6	chr5:58750400-58756200	Weak transcription	Fetal Stomach	stomach
7	chr5:58750600-58754800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr5:58751600-58755400	Weak transcription	Fetal Kidney	kidney
9	chr5:58752200-58756600	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr5:58752400-58756400	Weak transcription	Fetal Muscle Leg	muscle
11	chr5:58752600-58754600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr5:58753400-58754600	Enhancers	Liver	Liver
13	chr5:58753400-58754600	Enhancers	Fetal Brain Male	brain
14	chr5:58753400-58755000	Strong transcription	A549	lung
15	chr5:58753600-58754200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr5:58753600-58767400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr5:58753800-58755400	Enhancers	Pancreatic Islets	Pancreatic Islet
18	chr5:58753800-58755800	Enhancers	Fetal Intestine Large	intestine
19	chr5:58753800-58757600	Enhancers	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links