Variant report

Variant	rs2024106
Chromosome Location	chr7:39509448-39509449
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10232552	0.83[ASN][1000 genomes]
rs10242113	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs10261831	0.89[CEU][hapmap];0.82[JPT][hapmap]
rs1155269	0.87[TSI][hapmap]
rs2073542	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs2073543	0.82[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap]
rs2073544	0.81[TSI][hapmap]
rs2108719	0.80[CEU][hapmap]
rs2108720	0.83[MEX][hapmap];0.84[TSI][hapmap]
rs2108722	0.92[ASN][1000 genomes]
rs2237369	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs2237370	0.83[MEX][hapmap];0.87[TSI][hapmap]
rs2237371	0.83[MEX][hapmap];0.87[TSI][hapmap]
rs2237373	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs2237374	0.82[CEU][hapmap];0.84[JPT][hapmap]
rs2237378	0.83[MEX][hapmap];0.84[TSI][hapmap]
rs2237390	0.82[JPT][hapmap]
rs2282917	0.81[CEU][hapmap];0.83[TSI][hapmap]
rs2299123	0.87[TSI][hapmap]
rs2299127	0.82[JPT][hapmap]
rs2299128	0.82[JPT][hapmap]
rs2302122	0.82[CEU][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap]
rs2302123	0.81[TSI][hapmap]
rs2302125	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs2329395	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2876837	0.84[TSI][hapmap]
rs2876838	0.82[CEU][hapmap];0.81[JPT][hapmap]
rs34599091	0.86[ASN][1000 genomes]
rs35234861	0.85[ASN][1000 genomes]
rs740510	0.82[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.90[TSI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7797301	0.83[MEX][hapmap];0.87[TSI][hapmap]
rs887015	0.82[CEU][hapmap];0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv966782	chr7:39454992-39581886	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	esv1793209	chr7:39509401-39523947	Enhancers Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2024106	HECW1	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39505000-39512800	Weak transcription	Fetal Kidney	kidney
2	chr7:39508800-39511200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links