Variant report

Variant	rs3103098
Chromosome Location	chr4:8512250-8512251
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:8460137..8461781-chr4:8510827..8513622,2	K562	blood:
2	chr4:8510207..8512745-chr4:8513756..8515974,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-METTL19-1	chr4:8511989-8512730	ENSG00000205959.3
2	lnc-METTL19-1	chr4:8512003-8512730	NONHSAT095107

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10805206	0.88[ASN][1000 genomes]
rs10805207	0.88[ASN][1000 genomes]
rs10938718	0.85[JPT][hapmap]
rs11722806	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs11729265	0.85[AFR][1000 genomes]
rs11734531	0.86[ASN][1000 genomes]
rs12503034	0.86[JPT][hapmap];0.94[YRI][hapmap]
rs1880025	0.86[JPT][hapmap];0.94[YRI][hapmap]
rs2002860	0.82[CEU][hapmap];0.81[JPT][hapmap];0.94[YRI][hapmap];0.84[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2140336	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs2245808	0.86[JPT][hapmap];0.94[YRI][hapmap];0.80[AMR][1000 genomes]
rs2631723	0.81[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2631724	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2631727	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs2631729	0.86[JPT][hapmap]
rs2631730	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2631733	0.80[AMR][1000 genomes]
rs2631737	0.81[JPT][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2631757	0.81[AMR][1000 genomes]
rs2631763	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs2631764	0.80[AMR][1000 genomes]
rs2631765	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs2631766	0.86[JPT][hapmap]
rs2631767	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs2631769	0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2688221	0.81[JPT][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2688228	0.86[JPT][hapmap]
rs2688230	0.86[JPT][hapmap];0.89[YRI][hapmap]
rs2688234	0.82[CEU][hapmap];0.86[JPT][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs2688239	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2688240	0.82[CEU][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs28636730	0.87[ASN][1000 genomes]
rs3103090	0.80[AMR][1000 genomes]
rs3115396	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4325994	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs67489326	0.88[ASN][1000 genomes]
rs7665475	0.89[ASN][1000 genomes]
rs954270	0.86[JPT][hapmap]
rs954271	0.86[JPT][hapmap];0.94[YRI][hapmap]

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	nsv878604	chr4:8315938-8618916	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1002680	chr4:8357163-8721214	Active TSS Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv4224	chr4:8503727-8546462	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:8502800-8512800	Enhancers	Placenta	Placenta
2	chr4:8509000-8519200	Weak transcription	Brain Germinal Matrix	brain
3	chr4:8509200-8513200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr4:8509400-8513200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr4:8509400-8514000	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr4:8509400-8517200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr4:8509600-8514200	Weak transcription	HSMMtube	muscle
8	chr4:8509600-8515200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr4:8509600-8515600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr4:8510000-8515600	Weak transcription	NHDF-Ad	bronchial
11	chr4:8511800-8517800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr4:8512200-8519200	Weak transcription	Spleen	Spleen

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