Variant report

Variant	rs304504
Chromosome Location	chr10:91137826-91137827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10159774	0.96[CEU][hapmap];0.86[GIH][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10509570	1.00[YRI][hapmap]
rs10749605	0.89[CEU][hapmap]
rs10749606	0.96[CEU][hapmap];0.87[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10749607	0.96[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10887943	1.00[YRI][hapmap]
rs160052	1.00[YRI][hapmap]
rs1888923	0.85[CEU][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs215493	0.81[ASW][hapmap];0.93[CEU][hapmap];0.96[CHD][hapmap];0.89[GIH][hapmap];0.89[JPT][hapmap];0.92[MEX][hapmap];0.84[MKK][hapmap];0.80[TSI][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2458877	0.84[EUR][1000 genomes]
rs2484045	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs303170	0.82[EUR][1000 genomes]
rs303172	0.88[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];0.84[JPT][hapmap];0.80[TSI][hapmap];0.83[EUR][1000 genomes]
rs303174	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs303217	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];0.81[LWK][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs304439	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs304440	0.92[CEU][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs304443	0.84[EUR][1000 genomes]
rs304448	0.89[CEU][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes]
rs304449	0.93[CEU][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.83[EUR][1000 genomes]
rs304451	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs304478	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs304483	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs304485	0.93[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs304494	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs304495	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs305371	0.96[CEU][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs305373	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs305375	0.96[CEU][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs305376	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs305377	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4933504	0.83[AMR][1000 genomes]
rs4934471	0.89[CEU][hapmap];0.87[MEX][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes]
rs4934473	0.86[AMR][1000 genomes]
rs4934475	0.96[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs627524	0.96[CEU][hapmap];0.87[GIH][hapmap];0.92[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6586184	0.82[AMR][1000 genomes]
rs7094510	0.89[CEU][hapmap]
rs7095398	0.88[CEU][hapmap]
rs954439	0.81[CEU][hapmap]
rs975686	0.85[AMR][1000 genomes]

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	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs304504	IFIT1	cis	cerebellum	SCAN
rs304504	IFIT5	Cis_1M	lymphoblastoid	RTeQTL
rs304504	IFIT5	cis	Artery Tibial	GTEx
rs304504	IFIT5	cis	Nerve Tibial	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91129400-91138000	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr10:91134200-91138000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:91134800-91142600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr10:91135000-91150200	Weak transcription	Fetal Brain Male	brain
5	chr10:91135200-91138200	Weak transcription	Fetal Muscle Leg	muscle
6	chr10:91135800-91140800	Weak transcription	Fetal Heart	heart
7	chr10:91137400-91138800	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr10:91137600-91138000	Enhancers	H9 Cell Line	embryonic stem cell
9	chr10:91137600-91138800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr10:91137800-91138600	Enhancers	HUES64 Cell Line	embryonic stem cell

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