Variant report

Variant	rs13404016
Chromosome Location	chr2:86547626-86547627
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:86541740..86544512-chr2:86545041..86548345,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10210162	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10210905	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs11127025	0.87[ASN][1000 genomes]
rs11675985	0.94[ASW][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11682376	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11695402	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11891758	0.85[AFR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11892910	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1863054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1863064	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1863065	0.94[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.96[ASN][1000 genomes]
rs1863066	0.83[ASN][1000 genomes]
rs2113616	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs2161896	0.96[ASN][1000 genomes]
rs2367231	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2886899	0.86[ASN][1000 genomes]
rs3821016	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4832034	1.00[CHB][hapmap];0.96[ASN][1000 genomes]
rs4832259	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4832266	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4832275	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs57771960	1.00[ASN][1000 genomes]
rs6547672	0.90[ASN][1000 genomes]
rs6718596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6728519	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6730604	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6734695	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6756213	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7565645	1.00[CEU][hapmap]
rs7576102	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7606188	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[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	esv3412938	chr2:86370969-86867936	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	77 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13404016	MRPL35	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86533200-86563000	Weak transcription	Brain Germinal Matrix	brain
2	chr2:86536200-86559800	Weak transcription	HSMMtube	muscle
3	chr2:86537600-86563000	Weak transcription	Brain Anterior Caudate	brain
4	chr2:86539400-86552000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr2:86541400-86551600	Weak transcription	Fetal Brain Female	brain
6	chr2:86542200-86559400	Weak transcription	Stomach Smooth Muscle	stomach
7	chr2:86543000-86556800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr2:86545800-86548400	Enhancers	Primary T cells from cord blood	blood
9	chr2:86546200-86548200	Enhancers	Fetal Intestine Small	intestine
10	chr2:86546200-86548600	Enhancers	Fetal Intestine Large	intestine
11	chr2:86546800-86555000	Weak transcription	Left Ventricle	heart
12	chr2:86547000-86549800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr2:86547400-86553200	Weak transcription	Colon Smooth Muscle	Colon

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