Variant report

Variant	rs38139
Chromosome Location	chr7:20062601-20062602
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ITGB8-9	chr7:20057492-20064037	NONHSAT119404

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs38128	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38130	0.95[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38131	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38132	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38134	0.93[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38135	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs38140	0.82[EUR][1000 genomes]
rs38143	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38144	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38145	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs38148	0.82[EUR][1000 genomes]
rs38150	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38151	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38152	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38153	0.84[YRI][hapmap];0.82[EUR][1000 genomes]
rs38156	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38158	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs38160	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62455485	0.94[EUR][1000 genomes]
rs62455486	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033223	chr7:19682192-20461375	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv538795	chr7:19682192-20461375	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1027445	chr7:19947297-20211733	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv887830	chr7:19970584-20114589	Enhancers Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1027849	chr7:20003094-20084998	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv2762658	chr7:20023224-20127561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1023992	chr7:20053816-20104675	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:20058800-20062800	Enhancers	Primary B cells from cord blood	blood
2	chr7:20060000-20067600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr7:20060200-20067200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr7:20060200-20070000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr7:20060400-20066600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr7:20060400-20067200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr7:20060400-20075000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr7:20060800-20066600	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr7:20061400-20072800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr7:20061600-20066200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr7:20061600-20066600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr7:20062400-20066600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr7:20062600-20066600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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