Variant report

Variant	rs17073898
Chromosome Location	chr3:42388026-42388027
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12486236	1.00[CEU][hapmap]
rs28678303	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6772571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6800808	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs885703	0.92[AFR][1000 genomes]
rs9811803	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529987	chr3:41921995-42591771	Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv1009125	chr3:41953873-42472253	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv536549	chr3:41953873-42472253	Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv1005533	chr3:41953873-42596375	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	esv34472	chr3:42314655-42391480	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv2756986	chr3:42360106-42403380	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
7	esv2759144	chr3:42360106-42403380	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
8	nsv1008543	chr3:42372639-42401033	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:42385800-42389800	Enhancers	Primary neutrophils fromperipheralblood	blood
2	chr3:42386400-42388200	Enhancers	Primary T killer memory cells from peripheral blood	blood
3	chr3:42386600-42391600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
4	chr3:42386800-42390400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr3:42387200-42388200	Enhancers	Fetal Thymus	thymus
6	chr3:42387400-42389800	Enhancers	Primary T cells fromperipheralblood	blood
7	chr3:42387400-42390400	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr3:42387400-42390600	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr3:42387600-42389400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr3:42387600-42390000	Enhancers	Primary T cells from cord blood	blood
11	chr3:42387800-42388400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:42387800-42388800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:42387800-42390200	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr3:42388000-42389600	Weak transcription	Thymus	Thymus
15	chr3:42388000-42391000	Weak transcription	K562	blood

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