Variant report

Variant	rs1134124
Chromosome Location	chr4:79602718-79602719
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:2)
LncRNA
region (count:10)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:79581022..79584954-chr4:79599701..79603406,3	K562	blood:
2	chr4:79594982..79596748-chr4:79600792..79602854,2	K562	blood:

(count:10 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ANXA3-1	chr4:79601915-79603817	ENSG00000251442
2	lnc-ANXA3-1	chr4:79601915-79603853	ENSG00000251442
3	lnc-ANXA3-1	chr4:79601915-79603546	ENSG00000251442
4	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097070
5	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097071
6	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097072
7	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097073
8	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097074
9	lnc-ANXA3-1	chr4:79601915-79605655	NONHSAT097075
10	lnc-ANXA3-1	chr4:79601913-79604339	NONHSAT097076

No data

Extended variants
information (count: 47 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10008008	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10008069	0.83[ASW][hapmap];0.96[CEU][hapmap];1.00[GIH][hapmap];0.82[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10028815	0.83[CEU][hapmap];0.93[GIH][hapmap];0.85[TSI][hapmap]
rs10029214	0.88[CEU][hapmap];0.91[GIH][hapmap];0.87[TSI][hapmap]
rs1134123	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12510411	0.87[CEU][hapmap]
rs12639656	0.88[CEU][hapmap]
rs12711028	0.81[CEU][hapmap]
rs13110339	0.86[CEU][hapmap]
rs13133277	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1346144	0.84[EUR][1000 genomes]
rs1346145	0.95[TSI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1469290	0.80[EUR][1000 genomes]
rs1532427	0.88[CEU][hapmap]
rs1582759	0.80[EUR][1000 genomes]
rs1806906	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1834519	0.82[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2867465	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2867466	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4074675	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4254805	0.88[CEU][hapmap]
rs4257676	0.91[EUR][1000 genomes]
rs4264856	0.80[CEU][hapmap];0.89[EUR][1000 genomes]
rs4321658	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4365753	0.80[CEU][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes]
rs4472162	0.83[EUR][1000 genomes]
rs4472163	0.95[TSI][hapmap];0.83[EUR][1000 genomes]
rs4495064	0.87[CEU][hapmap];0.93[GIH][hapmap];0.90[TSI][hapmap]
rs4560439	0.80[CEU][hapmap];0.87[GIH][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4612	0.87[CEU][hapmap];0.93[GIH][hapmap];0.87[TSI][hapmap]
rs4619914	0.80[CEU][hapmap];0.91[EUR][1000 genomes]
rs6533940	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6815367	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6818230	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6825593	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6842686	0.88[CEU][hapmap];0.93[GIH][hapmap];0.90[TSI][hapmap]
rs6842723	0.88[CEU][hapmap];0.93[GIH][hapmap];0.90[TSI][hapmap]
rs6855458	0.84[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7672208	0.82[EUR][1000 genomes]
rs7675646	0.88[CEU][hapmap]
rs7677162	0.82[EUR][1000 genomes]
rs7677783	0.86[CEU][hapmap]
rs7694971	0.82[EUR][1000 genomes]
rs7699519	0.82[EUR][1000 genomes]
rs7699905	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9992088	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1134124	CXCL10	cis	parietal	SCAN
rs1134124	ANXA3	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79599000-79603000	Weak transcription	Fetal Intestine Small	intestine
2	chr4:79599200-79605400	Weak transcription	Small Intestine	intestine
3	chr4:79601200-79602800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:79602200-79604000	Weak transcription	K562	blood
5	chr4:79602600-79603200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr4:79602600-79604200	Enhancers	Fetal Intestine Large	intestine

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