Variant report

Variant	rs17762863
Chromosome Location	chr5:126663759-126663760
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:126661735..126664100-chr5:126665392..126668394,4	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10519949	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12652963	1.00[CEU][hapmap]
rs12652982	1.00[CEU][hapmap]
rs12654455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12655913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12659381	1.00[CEU][hapmap]
rs12659424	1.00[CEU][hapmap]
rs17684438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17684525	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17762857	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17839701	1.00[CEU][hapmap]
rs2194080	0.91[CHB][hapmap]
rs3812058	1.00[CEU][hapmap]
rs3812059	1.00[CEU][hapmap]
rs6862045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs73344962	1.00[EUR][1000 genomes]
rs73344963	1.00[EUR][1000 genomes]
rs73344964	1.00[EUR][1000 genomes]
rs73344966	1.00[EUR][1000 genomes]
rs7728190	1.00[CEU][hapmap]

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	nsv1024265	chr5:126213004-126691163	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv1019821	chr5:126658200-126934917	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv537894	chr5:126658200-126934917	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:126648000-126674800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr5:126656600-126665600	Weak transcription	Fetal Muscle Leg	muscle
3	chr5:126656600-126673400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:126656800-126667600	Weak transcription	HSMMtube	muscle
5	chr5:126658400-126665800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr5:126659400-126664800	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr5:126659600-126665600	Weak transcription	Brain Angular Gyrus	brain
8	chr5:126660400-126671200	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr5:126660600-126664600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr5:126661200-126664200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr5:126661200-126665600	Weak transcription	Brain Anterior Caudate	brain
12	chr5:126661800-126664600	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr5:126661800-126664800	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr5:126662400-126665600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr5:126662600-126664200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr5:126662800-126664200	Weak transcription	Brain Hippocampus Middle	brain
17	chr5:126662800-126665800	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr5:126662800-126672800	Weak transcription	Fetal Brain Female	brain
19	chr5:126663000-126665600	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr5:126663000-126665600	Weak transcription	Brain Substantia Nigra	brain
21	chr5:126663000-126665800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr5:126663000-126666000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr5:126663000-126666200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr5:126663200-126664200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:126663200-126673600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr5:126663400-126665400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr5:126663400-126665600	Weak transcription	Brain Germinal Matrix	brain
28	chr5:126663400-126665800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr5:126663400-126690200	Weak transcription	Fetal Brain Male	brain
30	chr5:126663600-126664000	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links