Variant report

Variant	rs2658962
Chromosome Location	chr12:45254734-45254735
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10736022	1.00[AFR][1000 genomes]
rs1376125	0.84[AFR][1000 genomes]
rs1450550	0.80[AFR][1000 genomes]
rs1964487	1.00[AFR][1000 genomes]
rs2658953	0.96[AFR][1000 genomes]
rs2658968	1.00[AFR][1000 genomes]
rs2658973	1.00[AFR][1000 genomes]
rs2658974	1.00[AFR][1000 genomes]
rs2703039	1.00[AFR][1000 genomes]
rs2703041	1.00[AFR][1000 genomes]
rs2703045	1.00[AFR][1000 genomes]
rs2710426	0.92[AFR][1000 genomes]
rs2710456	1.00[AFR][1000 genomes]
rs4257041	1.00[AFR][1000 genomes]
rs4306333	1.00[AFR][1000 genomes]
rs7132477	1.00[AFR][1000 genomes]
rs7964617	1.00[AFR][1000 genomes]
rs7964721	1.00[AFR][1000 genomes]
rs7968547	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	nsv1036926	chr12:45131884-45273648	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv541484	chr12:45131884-45273648	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45248600-45259600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:45248800-45255800	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr12:45249000-45255400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr12:45250800-45255400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr12:45252200-45255600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr12:45252400-45255200	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr12:45252800-45255000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr12:45253600-45255000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr12:45253600-45255400	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr12:45253600-45258200	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr12:45253800-45255000	Weak transcription	Primary T cells from cord blood	blood
12	chr12:45254600-45254800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr12:45254600-45258200	Enhancers	Primary T helper memory cells from peripheral blood 2	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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