Variant report

Variant	rs6754798
Chromosome Location	chr2:173400842-173400843
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs16860456	0.85[AMR][1000 genomes]
rs16860457	0.85[AMR][1000 genomes]
rs16860527	0.85[AMR][1000 genomes]
rs16860571	1.00[AMR][1000 genomes]
rs16860583	1.00[AMR][1000 genomes]
rs16860592	1.00[AMR][1000 genomes]
rs16860625	1.00[AMR][1000 genomes]
rs16860635	1.00[AMR][1000 genomes]
rs2737085	0.85[AMR][1000 genomes]
rs57121932	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57528312	1.00[AMR][1000 genomes]
rs60715604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61403555	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6709576	1.00[AFR][1000 genomes]
rs6715727	1.00[AMR][1000 genomes]
rs6741374	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7557427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7588603	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	esv2760591	chr2:173396905-173719520	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173392600-173419600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr2:173397600-173401000	ZNF genes & repeats	Primary B cells from cord blood	blood
3	chr2:173398200-173401000	Enhancers	H1 Cell Line	embryonic stem cell
4	chr2:173398400-173402000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
5	chr2:173399600-173414400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr2:173399800-173401000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:173399800-173401200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
8	chr2:173399800-173404000	Weak transcription	Primary T cells from cord blood	blood
9	chr2:173400600-173401400	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
10	chr2:173400800-173401200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr2:173400800-173402400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell

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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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