Variant report

Variant	rs6881054
Chromosome Location	chr5:58557098-58557099
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10036406	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs10038599	1.00[CHB][hapmap];0.80[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10055446	1.00[CHB][hapmap];0.80[JPT][hapmap];0.87[ASN][1000 genomes]
rs10059709	0.88[CHB][hapmap]
rs10061600	0.83[ASN][1000 genomes]
rs10061786	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10064893	1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs10068836	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10070294	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070436	1.00[CHB][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10075364	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10440630	0.89[CHB][hapmap]
rs11740402	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11747413	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs13328160	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13328175	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13328226	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13360907	0.98[ASN][1000 genomes]
rs17444059	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17528257	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17528285	1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs17528473	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17528634	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2112959	1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28529077	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28647633	0.98[ASN][1000 genomes]
rs60453299	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs61683381	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72765932	0.87[ASN][1000 genomes]
rs72765942	0.98[ASN][1000 genomes]
rs72765953	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72765961	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72765990	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9292201	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9686434	0.80[AMR][1000 genomes];0.90[EUR][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	nsv598252	chr5:58487764-58618889	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv520721	chr5:58520735-58558388	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58541200-58558400	Weak transcription	Pancreas	Pancrea
2	chr5:58541600-58560000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr5:58541600-58562400	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr5:58541800-58562800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr5:58551400-58557600	Enhancers	Rectal Smooth Muscle	rectum
6	chr5:58552400-58558400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:58552600-58560400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:58553400-58560000	Weak transcription	Fetal Lung	lung
9	chr5:58553800-58558400	Weak transcription	Left Ventricle	heart
10	chr5:58553800-58558400	Weak transcription	Right Atrium	heart
11	chr5:58553800-58568600	Weak transcription	Fetal Muscle Leg	muscle
12	chr5:58554200-58558400	Weak transcription	Psoas Muscle	Psoas
13	chr5:58554200-58559600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr5:58554200-58561000	Weak transcription	Stomach Mucosa	stomach
15	chr5:58554200-58562600	Weak transcription	Duodenum Mucosa	Duodenum
16	chr5:58554400-58558400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr5:58554800-58557400	Flanking Active TSS	A549	lung
18	chr5:58555200-58557200	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr5:58555800-58557800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:58555800-58558600	Enhancers	Colon Smooth Muscle	Colon
21	chr5:58556200-58558400	Weak transcription	Fetal Heart	heart
22	chr5:58556600-58558200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr5:58556800-58557200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:58556800-58557200	Enhancers	Pancreatic Islets	Pancreatic Islet
25	chr5:58556800-58557200	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr5:58556800-58557400	Enhancers	Fetal Intestine Small	intestine
27	chr5:58556800-58558000	Enhancers	Fetal Intestine Large	intestine
28	chr5:58556800-58558600	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr5:58557000-58557200	Enhancers	Fetal Kidney	kidney
30	chr5:58557000-58559200	Weak transcription	Hela-S3	cervix

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