Variant report

Variant	rs2255852
Chromosome Location	chr1:160927045-160927046
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1062826	0.81[JPT][hapmap]
rs1062827	0.81[JPT][hapmap]
rs11801591	0.88[JPT][hapmap]
rs11802727	0.87[JPT][hapmap]
rs11807930	0.88[JPT][hapmap]
rs12118803	0.84[ASN][1000 genomes]
rs12403334	0.88[JPT][hapmap]
rs12565932	0.81[JPT][hapmap]
rs17388108	0.81[JPT][hapmap]
rs2247596	0.81[JPT][hapmap]
rs2247671	0.81[JPT][hapmap]
rs2255842	0.82[ASN][1000 genomes]
rs2255980	0.83[ASN][1000 genomes]
rs2297220	0.84[JPT][hapmap]
rs2297221	0.81[JPT][hapmap]
rs2481080	0.81[JPT][hapmap]
rs2481081	0.81[JPT][hapmap]
rs2481084	0.81[JPT][hapmap]
rs2779803	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3007144	0.88[ASN][1000 genomes]
rs3737785	0.81[JPT][hapmap]
rs7520618	0.83[ASN][1000 genomes]
rs7523191	0.83[ASN][1000 genomes]
rs7527651	0.82[ASN][1000 genomes]
rs7543952	0.83[ASN][1000 genomes]
rs836	0.81[JPT][hapmap]
rs869985	0.81[JPT][hapmap]

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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv548058	chr1:160925455-160989614	Flanking Active TSS Genic enhancers Active TSS Enhancers Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2255852	NDUFS2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:160924600-160930800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr1:160924600-160931200	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr1:160924800-160930600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr1:160924800-160931000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr1:160924800-160931200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr1:160925000-160930600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr1:160926600-160927200	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr1:160926800-160927200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr1:160926800-160927200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr1:160927000-160927200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
11	chr1:160927000-160928200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr1:160927000-160930600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr1:160927000-160930600	Weak transcription	Ovary	ovary

Quick Search:

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

what's new

Quick links