Variant report

Variant	rs7021437
Chromosome Location	chr9:92799547-92799548
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10118926	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10122211	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10820817	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10820826	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10991697	0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10991831	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1443361	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1443362	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17361084	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4142061	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4743823	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743824	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4743827	0.84[CHB][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4744020	0.95[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4744040	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs497510	0.91[AFR][1000 genomes]
rs552128	0.81[YRI][hapmap]
rs6479330	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs652454	0.93[LWK][hapmap];0.88[MKK][hapmap];0.81[YRI][hapmap]
rs657899	0.82[ASW][hapmap];0.91[LWK][hapmap];0.85[MKK][hapmap];0.96[YRI][hapmap]
rs684476	0.89[AFR][1000 genomes]
rs7027342	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7030563	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs894636	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs920753	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs993171	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]

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	nsv893561	chr9:92732368-92802101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv482303	chr9:92752928-92890226	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv614852	chr9:92786722-93100550	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv893562	chr9:92794721-92850878	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7021437	CKS2	cis	cerebellum	SCAN
rs7021437	SYK	cis	cerebellum	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92789600-92806400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:92789800-92799600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr9:92795600-92800400	Weak transcription	Brain Germinal Matrix	brain
4	chr9:92797400-92799600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr9:92797600-92801600	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:92799200-92800200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:92799400-92799600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:92799400-92799600	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr9:92799400-92799800	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr9:92799400-92799800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr9:92799400-92800000	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:92799400-92800000	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr9:92799400-92800000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr9:92799400-92800000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr9:92799400-92800000	Enhancers	Fetal Muscle Trunk	muscle
16	chr9:92799400-92802200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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