Variant report

Variant	rs73778058
Chromosome Location	chr6:140163004-140163005
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs17811355	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2144165	0.81[AMR][1000 genomes]
rs2179996	0.81[AMR][1000 genomes]
rs2207334	0.81[AMR][1000 genomes]
rs3918473	0.81[AMR][1000 genomes]
rs3946063	0.81[AMR][1000 genomes]
rs4554334	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4896490	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4896491	0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4896492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4896493	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55772636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917808	0.81[AMR][1000 genomes]
rs73778053	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73778057	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73778065	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7750105	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869066	chr6:139777114-140639695	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv830820	chr6:140059279-140255292	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
3	nsv1017015	chr6:140084137-140300565	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1019407	chr6:140087307-140304334	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1022881	chr6:140098646-140172570	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:140160200-140163600	Enhancers	Primary B cells from peripheral blood	blood
2	chr6:140160400-140164000	Enhancers	Primary B cells from cord blood	blood
3	chr6:140161200-140167800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:140161200-140167800	Weak transcription	Psoas Muscle	Psoas
5	chr6:140161400-140167200	Weak transcription	Primary hematopoietic stem cells	blood
6	chr6:140161400-140168200	Weak transcription	Adipose Nuclei	Adipose
7	chr6:140161600-140164000	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr6:140161600-140167600	Weak transcription	Liver	Liver
9	chr6:140162400-140163200	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr6:140162400-140163200	Enhancers	Fetal Intestine Large	intestine
11	chr6:140162400-140163200	Enhancers	Sigmoid Colon	Sigmoid Colon
12	chr6:140162400-140163400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
13	chr6:140162400-140163600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
14	chr6:140162600-140163400	Enhancers	Fetal Intestine Small	intestine
15	chr6:140162600-140163600	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr6:140162600-140163600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
17	chr6:140162800-140163400	Flanking Active TSS	Duodenum Mucosa	Duodenum
18	chr6:140162800-140163600	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr6:140163000-140163200	Active TSS	GM12878-XiMat	blood

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Input of quick search could be:

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

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