Variant report

Variant	rs2680345
Chromosome Location	chr15:73501999-73502000
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11072404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12592184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12903941	0.82[JPT][hapmap]
rs1320241	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1479336	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1620369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1621216	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1631796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1678246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1678247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16957640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1871387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619257	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619258	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2623989	0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2623991	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2623992	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2623999	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2660822	0.88[EUR][1000 genomes]
rs2660825	1.00[CEU][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2660828	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2680336	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2680337	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2680342	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2680346	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28462360	0.89[ASN][1000 genomes]
rs4564531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4570800	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs471192	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4776627	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4776629	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs481579	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs484515	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs484544	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs489873	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs494493	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs497539	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs499098	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs513744	0.86[EUR][1000 genomes]
rs525587	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs529004	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs542259	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs549377	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs553238	0.90[EUR][1000 genomes]
rs55787640	0.88[EUR][1000 genomes]
rs561929	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56402186	0.86[ASN][1000 genomes]
rs56753901	0.91[ASN][1000 genomes]
rs58859253	0.85[EUR][1000 genomes]
rs59537860	0.85[EUR][1000 genomes]
rs60685845	0.91[ASN][1000 genomes]
rs6495056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs66466251	0.87[ASN][1000 genomes]
rs66881913	0.88[EUR][1000 genomes]
rs66931013	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67178516	0.93[ASN][1000 genomes]
rs67928653	0.91[ASN][1000 genomes]
rs67999476	0.81[ASN][1000 genomes]
rs68053508	0.93[EUR][1000 genomes]
rs68123262	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7163504	1.00[CEU][hapmap];0.86[CHB][hapmap]
rs7168651	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7168829	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7170328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7177002	0.91[ASN][1000 genomes]
rs7177629	0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs72739445	0.87[ASN][1000 genomes]
rs8033192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs8037761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8039308	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8041219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs8043347	0.84[AFR][1000 genomes]
rs9806271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv904340	chr15:73375847-73524629	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv904342	chr15:73390790-73524629	Enhancers ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73472200-73504600	Weak transcription	Left Ventricle	heart
2	chr15:73474200-73523800	Weak transcription	Esophagus	oesophagus
3	chr15:73475200-73517600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:73476200-73506200	Weak transcription	Brain Cingulate Gyrus	brain
5	chr15:73477600-73503800	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr15:73482000-73504600	Weak transcription	Aorta	Aorta
7	chr15:73483600-73505800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:73487200-73519800	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr15:73489000-73502200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr15:73492200-73518000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:73492400-73516200	Weak transcription	Fetal Brain Male	brain
12	chr15:73493400-73504400	Weak transcription	Fetal Intestine Small	intestine
13	chr15:73493400-73528600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr15:73495600-73502600	Weak transcription	Small Intestine	intestine
15	chr15:73495600-73504600	Weak transcription	Psoas Muscle	Psoas
16	chr15:73495800-73507400	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr15:73496200-73506200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:73496800-73507400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr15:73497000-73517600	Weak transcription	Brain Hippocampus Middle	brain
20	chr15:73497400-73504400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr15:73497400-73505800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:73497800-73541800	Weak transcription	Fetal Kidney	kidney
23	chr15:73498000-73502200	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr15:73498000-73502400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr15:73498000-73505200	Weak transcription	Ovary	ovary
26	chr15:73498000-73515200	Weak transcription	Fetal Lung	lung
27	chr15:73498200-73505600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr15:73498600-73502000	Weak transcription	Fetal Stomach	stomach
29	chr15:73499600-73503000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr15:73501600-73502400	Strong transcription	Fetal Intestine Large	intestine
31	chr15:73501800-73502000	Active TSS	ES-WA7 Cell Line	embryonic stem cell

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