Variant report

Variant	rs162337
Chromosome Location	chr5:98291181-98291182
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:98261995..98270397-chr5:98280624..98292060,15	K562	blood:
2	chr5:98285322..98288354-chr5:98290192..98292077,3	K562	blood:
3	chr5:98262437..98267686-chr5:98287585..98292205,9	K562	blood:

Variant related genes	Relation type
ENSG00000153922	Chromatin interaction
ENSG00000248489	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10038192	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10040066	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10050423	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10076291	0.83[EUR][1000 genomes]
rs10479345	0.83[EUR][1000 genomes]
rs10479346	0.83[EUR][1000 genomes]
rs1093794	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1104262	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11949103	0.83[EUR][1000 genomes]
rs11950452	0.82[EUR][1000 genomes]
rs11950855	0.83[EUR][1000 genomes]
rs11960896	0.82[EUR][1000 genomes]
rs12189335	0.83[EUR][1000 genomes]
rs13179812	0.81[EUR][1000 genomes]
rs1472622	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs151102	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs161731	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs161732	0.84[ASN][1000 genomes]
rs161935	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs161936	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs162341	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs172874	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2455423	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs246251	0.94[ASN][1000 genomes]
rs2927647	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2927648	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2927654	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2937706	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2937708	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2937709	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs325220	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs326480	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs326481	1.00[ASN][1000 genomes]
rs326482	1.00[ASN][1000 genomes]
rs326493	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs327807	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34489	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34490	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34491	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34496	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34497	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34498	1.00[ASN][1000 genomes]
rs34499	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363929	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs366000	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs366353	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs370529	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs378089	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs380156	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs393697	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs395668	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs39660	0.96[ASN][1000 genomes]
rs398436	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs40075	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs407562	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs416750	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs422127	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs428836	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs434039	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs443726	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs447044	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs449204	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs451141	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4565239	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs45931	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs467728	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs469018	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4703049	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4703052	0.83[EUR][1000 genomes]
rs4703340	0.83[EUR][1000 genomes]
rs539024	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs559574	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs709390	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7710032	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7711061	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs819232	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882415	chr5:98134186-98312447	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv882416	chr5:98146106-98312447	Bivalent/Poised TSS Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv537819	chr5:98253348-98299646	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs162337	RGMB	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:98266600-98291400	Weak transcription	Brain Germinal Matrix	brain
2	chr5:98274800-98297200	Weak transcription	Thymus	Thymus
3	chr5:98278600-98299400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr5:98279400-98298400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:98283800-98293800	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:98290600-98296800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr5:98290800-98293000	Weak transcription	K562	blood

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