Variant report

Variant	rs11071311
Chromosome Location	chr15:57609123-57609124
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57601950..57604007-chr15:57607354..57609319,2	K562	blood:
2	chr15:57598783..57599377-chr15:57608651..57609348,2	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10152785	0.84[EUR][1000 genomes]
rs11631073	0.82[ASW][hapmap];0.85[CEU][hapmap];0.98[GIH][hapmap];0.85[JPT][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs11855537	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12904145	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12905158	0.84[CEU][hapmap]
rs12913286	1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17820184	0.96[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];0.81[GIH][hapmap];0.90[JPT][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2414501	0.90[ASW][hapmap];0.88[CEU][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];0.84[LWK][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2431018	0.85[CEU][hapmap]
rs2544131	0.80[EUR][1000 genomes]
rs2544132	0.96[CEU][hapmap];0.85[TSI][hapmap];0.84[EUR][1000 genomes]
rs2591053	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2591054	0.87[CEU][hapmap]
rs2909548	0.83[EUR][1000 genomes]
rs4534776	0.85[JPT][hapmap]
rs4774256	0.81[JPT][hapmap]
rs4774923	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs4774924	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4774925	0.82[CEU][hapmap]
rs4774926	0.89[ASW][hapmap];0.92[CEU][hapmap];0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.90[LWK][hapmap];0.81[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4774927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4774928	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61999614	0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7170975	0.81[CEU][hapmap]
rs8027325	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11071311	TEX9	cis	cerebellum	SCAN
rs11071311	LINC00926	cis	Artery Tibial	GTEx

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57599400-57612800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr15:57599600-57612400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:57599600-57612800	Weak transcription	GM12878-XiMat	blood
4	chr15:57599600-57614200	Weak transcription	Small Intestine	intestine
5	chr15:57599600-57617800	Weak transcription	Spleen	Spleen
6	chr15:57602800-57617000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:57603200-57611400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:57604200-57612800	Weak transcription	Primary B cells from cord blood	blood
9	chr15:57605000-57619400	Weak transcription	Pancreas	Pancrea
10	chr15:57605600-57611000	Weak transcription	Primary B cells from peripheral blood	blood
11	chr15:57605600-57611800	Weak transcription	Fetal Stomach	stomach
12	chr15:57605600-57612400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:57605600-57612400	Weak transcription	Fetal Brain Male	brain
14	chr15:57605600-57612800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:57605600-57614400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:57606400-57611200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:57606800-57611000	Weak transcription	Fetal Intestine Large	intestine
18	chr15:57608800-57610000	Enhancers	Fetal Muscle Leg	muscle

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