Variant report

Variant	rs55788310
Chromosome Location	chr5:116773240-116773241
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-COMMD10-5	chr5:116773220-116773315	ENSG00000248663
2	lnc-COMMD10-5	chr5:116773220-116773311	NONHSAT147358
3	lnc-COMMD10-5	chr5:116773220-116773315	NONHSAT103387

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs10035911	0.90[ASN][1000 genomes]
rs10071916	0.90[ASN][1000 genomes]
rs10079714	0.81[ASN][1000 genomes]
rs10477562	0.90[ASN][1000 genomes]
rs10478348	0.90[ASN][1000 genomes]
rs10478349	0.90[ASN][1000 genomes]
rs10478350	0.90[ASN][1000 genomes]
rs13164296	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13164536	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13165072	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13175962	1.00[EUR][1000 genomes]
rs13176313	1.00[EUR][1000 genomes]
rs13176472	1.00[EUR][1000 genomes]
rs13176885	0.96[EUR][1000 genomes]
rs13177703	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13180710	1.00[EUR][1000 genomes]
rs13180714	1.00[EUR][1000 genomes]
rs13184765	0.88[EUR][1000 genomes]
rs13354532	0.90[ASN][1000 genomes]
rs13355712	0.81[ASN][1000 genomes]
rs1366184	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17141717	1.00[EUR][1000 genomes]
rs17398971	0.88[EUR][1000 genomes]
rs17839480	0.84[EUR][1000 genomes]
rs1820667	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2560627	0.90[ASN][1000 genomes]
rs2657043	0.83[ASN][1000 genomes]
rs267059	0.83[ASN][1000 genomes]
rs267060	0.83[ASN][1000 genomes]
rs267069	0.83[ASN][1000 genomes]
rs28454754	0.81[ASN][1000 genomes]
rs34360904	0.84[EUR][1000 genomes]
rs34374339	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35183133	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35515870	0.84[EUR][1000 genomes]
rs35753719	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs365600	0.83[ASN][1000 genomes]
rs366335	0.83[ASN][1000 genomes]
rs369130	0.83[ASN][1000 genomes]
rs374057	0.83[ASN][1000 genomes]
rs378387	0.83[ASN][1000 genomes]
rs386139	0.83[ASN][1000 genomes]
rs387069	0.83[ASN][1000 genomes]
rs388253	0.83[ASN][1000 genomes]
rs388643	0.83[ASN][1000 genomes]
rs390818	0.83[ASN][1000 genomes]
rs392437	0.83[ASN][1000 genomes]
rs398793	0.83[ASN][1000 genomes]
rs400845	0.83[ASN][1000 genomes]
rs401607	0.83[ASN][1000 genomes]
rs402131	0.83[ASN][1000 genomes]
rs402578	0.83[ASN][1000 genomes]
rs408218	0.83[ASN][1000 genomes]
rs410212	0.83[ASN][1000 genomes]
rs411705	0.83[ASN][1000 genomes]
rs412087	0.83[ASN][1000 genomes]
rs4133428	0.90[ASN][1000 genomes]
rs428812	0.83[ASN][1000 genomes]
rs435028	0.83[ASN][1000 genomes]
rs445048	0.83[ASN][1000 genomes]
rs55912291	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56222571	0.81[ASN][1000 genomes]
rs611501	0.83[ASN][1000 genomes]
rs612365	0.83[ASN][1000 genomes]
rs62378254	1.00[EUR][1000 genomes]
rs62378255	1.00[EUR][1000 genomes]
rs62378256	1.00[EUR][1000 genomes]
rs62378257	1.00[EUR][1000 genomes]
rs62378258	1.00[EUR][1000 genomes]
rs62380061	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62380371	0.90[ASN][1000 genomes]
rs62380373	0.90[ASN][1000 genomes]
rs62380374	0.90[ASN][1000 genomes]
rs62380375	0.90[ASN][1000 genomes]
rs62380378	0.90[ASN][1000 genomes]
rs62380379	0.90[ASN][1000 genomes]
rs62380380	0.90[ASN][1000 genomes]
rs62380381	0.90[ASN][1000 genomes]
rs62380382	0.90[ASN][1000 genomes]
rs62380383	0.90[ASN][1000 genomes]
rs62380384	0.90[ASN][1000 genomes]
rs62380385	0.90[ASN][1000 genomes]
rs62380386	0.90[ASN][1000 genomes]
rs66497971	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67546109	1.00[EUR][1000 genomes]
rs6861435	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6887390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6899129	0.83[ASN][1000 genomes]
rs72812601	0.90[ASN][1000 genomes]
rs72814413	0.90[ASN][1000 genomes]
rs72814414	0.90[ASN][1000 genomes]
rs962006	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs962007	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830457	chr5:116724777-116875060	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:116770400-116773600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr5:116770600-116774600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr5:116771000-116773400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:116772200-116773800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr5:116772800-116773800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr5:116772800-116773800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr5:116772800-116773800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr5:116772800-116773800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr5:116773000-116773400	Enhancers	H9 Cell Line	embryonic stem cell
10	chr5:116773000-116773600	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr5:116773000-116774000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr5:116773200-116773800	Enhancers	H1 Cell Line	embryonic stem cell
13	chr5:116773200-116773800	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr5:116773200-116774600	Weak transcription	Colon Smooth Muscle	Colon

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