Variant report

Variant	rs16853534
Chromosome Location	chr2:168238527-168238528
allele	C/T
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]
rs16822926	1.00[AMR][1000 genomes]
rs16853277	1.00[AMR][1000 genomes]
rs16853299	1.00[AMR][1000 genomes]
rs16853329	1.00[AMR][1000 genomes]
rs16853380	1.00[AMR][1000 genomes]
rs16853465	1.00[AMR][1000 genomes]
rs16853502	1.00[AMR][1000 genomes]
rs16853544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853546	1.00[AMR][1000 genomes]
rs16853549	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853552	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853554	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853560	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853563	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16853568	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35951823	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73017772	1.00[AMR][1000 genomes]
rs7556808	1.00[AMR][1000 genomes]
rs7582667	1.00[AMR][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	nsv875378	chr2:168107491-168297961	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	esv3364733	chr2:168109919-168302141	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv431790	chr2:168217873-168273530	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv491872	chr2:168220323-168737986	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168236400-168239000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr2:168236800-168244600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr2:168236800-168246200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:168237200-168241000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:168237200-168241000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr2:168237200-168241000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr2:168237200-168245800	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr2:168237400-168240200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr2:168237400-168244600	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr2:168237600-168246400	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr2:168237800-168238800	Enhancers	H1 Cell Line	embryonic stem cell
12	chr2:168237800-168239200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr2:168238000-168238600	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr2:168238000-168245800	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr2:168238000-168247800	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr2:168238200-168239800	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr2:168238400-168241000	Enhancers	Rectal Mucosa Donor 31	rectum

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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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