Variant report

Variant	rs6464620
Chromosome Location	chr7:139945539-139945540
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12672589	0.83[EUR][1000 genomes]
rs17161447	0.83[ASW][hapmap];0.81[CEU][hapmap];0.90[MEX][hapmap];0.84[TSI][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58263911	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58599202	1.00[EUR][1000 genomes]
rs61580118	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6943904	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs6944218	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6944258	0.97[EUR][1000 genomes]
rs73473567	0.82[EUR][1000 genomes]
rs73473571	0.92[EUR][1000 genomes]
rs73473582	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73473584	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7787388	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7788443	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7799803	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][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	nsv889247	chr7:139855216-140033631	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1015840	chr7:139912355-139987681	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1026255	chr7:139944473-140043299	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:139939800-139953400	Weak transcription	Lung	lung
2	chr7:139941800-139953400	Weak transcription	Small Intestine	intestine
3	chr7:139942600-139950600	Weak transcription	Placenta	Placenta
4	chr7:139942800-139947400	Weak transcription	Left Ventricle	heart
5	chr7:139943000-139945600	Enhancers	K562	blood
6	chr7:139943600-139946600	Enhancers	HepG2	liver
7	chr7:139943600-139948400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr7:139943600-139950600	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr7:139943800-139946600	Weak transcription	Colonic Mucosa	Colon
10	chr7:139943800-139948800	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr7:139944000-139959400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr7:139944200-139948200	Weak transcription	Fetal Intestine Large	intestine
13	chr7:139944800-139947000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr7:139944800-139948800	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr7:139944800-139951800	Weak transcription	Duodenum Mucosa	Duodenum
16	chr7:139944800-139953200	Weak transcription	Stomach Mucosa	stomach

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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