Variant report

Variant	rs12057377
Chromosome Location	chr1:195711108-195711109
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10921920	1.00[AMR][1000 genomes]
rs12058845	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12065480	1.00[AMR][1000 genomes]
rs12065832	1.00[AMR][1000 genomes]
rs12070909	1.00[AMR][1000 genomes]
rs12071542	1.00[AMR][1000 genomes]
rs12074439	1.00[AMR][1000 genomes]
rs12077673	1.00[AMR][1000 genomes]
rs12090999	1.00[AMR][1000 genomes]
rs12097767	1.00[AMR][1000 genomes]
rs28473187	1.00[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	nsv872894	chr1:195053221-195745968	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1009307	chr1:195368381-195726703	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv872932	chr1:195447286-195736070	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv872937	chr1:195493538-195849028	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1007203	chr1:195672857-195902360	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:195702800-195712200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:195708000-195712400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:195708800-195711200	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr1:195709800-195711600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr1:195710600-195713600	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr1:195710800-195711200	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr1:195710800-195711200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr1:195710800-195711200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr1:195710800-195711200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:195710800-195711200	Enhancers	H9 Cell Line	embryonic stem cell
11	chr1:195710800-195711400	Active TSS	Primary T cells from cord blood	blood
12	chr1:195710800-195711600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr1:195710800-195711600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr1:195710800-195711600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr1:195710800-195711600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr1:195711000-195711400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr1:195711000-195711400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr1:195711000-195711400	Active TSS	GM12878-XiMat	blood
19	chr1:195711000-195711400	Active TSS	HSMM	muscle

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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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