Variant report

Variant	rs1413520
Chromosome Location	chr10:44835218-44835219
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:44829794..44831672-chr10:44833219..44836187,2	K562	blood:
2	chr10:44830042..44832187-chr10:44833219..44835318,3	K562	blood:
3	chr10:44185633..44186177-chr10:44834778..44835408,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10508884	0.89[CHD][hapmap];0.90[JPT][hapmap]
rs10793536	0.84[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10900025	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1147887	0.81[CEU][hapmap]
rs11815919	0.89[CHD][hapmap];0.90[JPT][hapmap]
rs12264745	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12269106	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1360724	1.00[ASN][1000 genomes]
rs1436927	0.81[CHD][hapmap]
rs17156139	0.89[CHD][hapmap];0.90[JPT][hapmap]
rs1836981	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs192365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2118161	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs266076	0.85[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs266077	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs266078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs266079	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4366439	0.88[JPT][hapmap]
rs751425	0.85[CEU][hapmap];0.86[CHB][hapmap];0.89[CHD][hapmap];0.82[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs751426	0.86[CHB][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs77839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7904065	0.90[JPT][hapmap]
rs7918046	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[ASN][1000 genomes]
rs800323	0.81[CHD][hapmap]
rs928564	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs928565	0.85[CEU][hapmap]
rs9663658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv1038511	chr10:44596885-44870030	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1052337	chr10:44821390-44865015	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1413520	ZNF22	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44830400-44836600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr10:44830400-44839200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr10:44830600-44836400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr10:44830600-44836600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:44830600-44845200	Weak transcription	Pancreas	Pancrea
6	chr10:44830800-44841800	Weak transcription	Right Ventricle	heart
7	chr10:44831400-44835600	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr10:44831400-44847200	Weak transcription	Right Atrium	heart
9	chr10:44832200-44835800	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr10:44833200-44839400	Weak transcription	Psoas Muscle	Psoas
11	chr10:44833600-44847400	Weak transcription	Fetal Muscle Leg	muscle
12	chr10:44834800-44835400	Enhancers	Placenta	Placenta
13	chr10:44834800-44836200	Enhancers	Fetal Kidney	kidney
14	chr10:44835000-44836400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr10:44835000-44837600	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links