Variant report

Variant	rs10898563
Chromosome Location	chr11:86659213-86659214
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:86652550..86654978-chr11:86658385..86660560,2	K562	blood:
2	chr11:86658501..86661245-chr11:86750837..86752641,2	K562	blood:
3	chr11:86656932..86659895-chr11:86660848..86662481,2	K562	blood:

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11234888	1.00[YRI][hapmap]
rs11234892	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11234894	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11234899	0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12277682	0.85[MEX][hapmap]
rs12575890	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2512502	1.00[ASW][hapmap]
rs3740664	1.00[YRI][hapmap]
rs61903841	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][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	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1037042	chr11:86586876-86978492	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv541119	chr11:86586876-86978492	Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10898563	NAALAD2	cis	cerebellum	SCAN

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86643600-86663200	Weak transcription	Placenta	Placenta
2	chr11:86646000-86662000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr11:86647000-86662400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr11:86649800-86664600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:86650200-86659600	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr11:86651400-86660600	Weak transcription	Brain Angular Gyrus	brain
7	chr11:86651400-86664200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr11:86651600-86662200	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr11:86651600-86663200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:86651800-86659600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr11:86651800-86659800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr11:86651800-86662600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr11:86651800-86662600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr11:86651800-86662600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr11:86651800-86663000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:86651800-86663200	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr11:86651800-86664800	Weak transcription	Esophagus	oesophagus
18	chr11:86652000-86662200	Weak transcription	HUES64 Cell Line	embryonic stem cell
19	chr11:86652000-86662600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr11:86652000-86663000	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr11:86652400-86662400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr11:86652400-86664000	Weak transcription	Brain Hippocampus Middle	brain
23	chr11:86652400-86664000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr11:86652800-86664200	Weak transcription	Brain Substantia Nigra	brain
25	chr11:86653000-86662200	Weak transcription	Fetal Intestine Large	intestine
26	chr11:86653200-86659800	Weak transcription	Fetal Intestine Small	intestine
27	chr11:86653200-86659800	Weak transcription	Pancreas	Pancrea
28	chr11:86653200-86664200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr11:86653200-86665800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr11:86653400-86659800	Weak transcription	Gastric	stomach
31	chr11:86653400-86662400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr11:86653400-86665200	Weak transcription	Fetal Heart	heart
33	chr11:86653600-86662600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr11:86653600-86664000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
35	chr11:86653600-86664000	Weak transcription	Brain Anterior Caudate	brain
36	chr11:86653800-86662400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr11:86654000-86659800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr11:86654000-86662200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr11:86654200-86661400	Weak transcription	Hela-S3	cervix
40	chr11:86655600-86660200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr11:86656400-86663200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr11:86656600-86659600	Genic enhancers	Aorta	Aorta
43	chr11:86656800-86660200	Genic enhancers	Fetal Stomach	stomach
44	chr11:86656800-86662800	Enhancers	Fetal Brain Male	brain
45	chr11:86656800-86663000	Genic enhancers	Fetal Muscle Leg	muscle
46	chr11:86657000-86659600	Genic enhancers	Fetal Kidney	kidney
47	chr11:86657000-86659800	Genic enhancers	HepG2	liver
48	chr11:86657000-86660200	Genic enhancers	Left Ventricle	heart
49	chr11:86657000-86663400	Transcr. at gene 5' and 3'	Adipose Nuclei	Adipose
50	chr11:86657200-86659600	Genic enhancers	Skeletal Muscle Female	skeletal muscle

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