Variant report

Variant	rs73438468
Chromosome Location	chr7:124826410-124826411
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPAM1-5	chr7:124826098-124826546	ENSG00000237764.2
2	lnc-SPAM1-5	chr7:124826098-124826546	NONHSAT123102
3	lnc-SPAM1-5	chr7:124826098-124826546	NR_110188

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10268841	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs10429002	0.90[AMR][1000 genomes]
rs56201984	0.90[AMR][1000 genomes]
rs61227096	0.90[AMR][1000 genomes]
rs61429625	0.90[AMR][1000 genomes]
rs61598567	0.90[AMR][1000 genomes]
rs66613685	0.90[AMR][1000 genomes]
rs66712671	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs67066083	0.90[AMR][1000 genomes]
rs67449341	0.90[AMR][1000 genomes]
rs67501403	0.90[AMR][1000 genomes]
rs67504575	0.90[AMR][1000 genomes]
rs67617850	0.90[AMR][1000 genomes]
rs73227528	0.90[AMR][1000 genomes]
rs73438462	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438471	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438481	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73438490	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73440515	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73440527	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs73440535	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs73440543	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73440547	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73719331	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv429809	chr7:123937674-124835925	Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
2	esv3394090	chr7:124602150-124900799	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv831119	chr7:124714009-124890119	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
4	esv2422188	chr7:124782873-125254203	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv1029627	chr7:124810399-124901651	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv2761087	chr7:124823624-125429662	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:124822200-124829600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:124822400-124827200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr7:124825400-124832400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:124826400-124828200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

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