Variant report

Variant	rs627582
Chromosome Location	chr3:43112626-43112627
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11707627	0.92[CEU][hapmap];0.96[EUR][1000 genomes]
rs11707725	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11715255	0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11719553	0.85[EUR][1000 genomes]
rs11719573	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17075162	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1851577	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28376397	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs502399	0.84[EUR][1000 genomes]
rs57549659	0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs60879744	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs615538	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62247988	0.83[EUR][1000 genomes]
rs737351	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7619872	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs834175	0.84[EUR][1000 genomes]
rs834176	0.90[ASN][1000 genomes]
rs9878975	0.81[EUR][1000 genomes]

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	nsv460522	chr3:42967597-43175207	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv590149	chr3:42967597-43175207	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43092800-43117800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr3:43093400-43120200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr3:43094400-43114800	Weak transcription	Brain Anterior Caudate	brain
4	chr3:43095000-43114800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:43096200-43121200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:43100200-43120200	Weak transcription	Brain Angular Gyrus	brain
7	chr3:43101600-43121000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:43102000-43121000	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr3:43102800-43118800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:43103000-43120000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:43103200-43120600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:43104800-43120800	Weak transcription	Gastric	stomach
13	chr3:43105000-43118800	Weak transcription	Thymus	Thymus
14	chr3:43105000-43119600	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:43106000-43115600	Weak transcription	Ovary	ovary
16	chr3:43106400-43119200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:43106400-43120400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:43112200-43121200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr3:43112600-43112800	Enhancers	Primary T helper cells PMA-I stimulated	--

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