Variant report

Variant	rs10770037
Chromosome Location	chr11:9539663-9539664
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:9537808..9540445-chr11:9593472..9596281,2	K562	blood:
2	chr11:9537904..9540865-chr11:9540885..9544510,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166483	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1020621	0.85[CEU][hapmap]
rs10840243	0.89[CEU][hapmap];0.87[CHD][hapmap];1.00[MEX][hapmap]
rs10840245	0.90[CHD][hapmap];0.84[MEX][hapmap]
rs10840249	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11042350	0.80[CEU][hapmap];0.87[MEX][hapmap]
rs11042366	0.85[CEU][hapmap];0.96[MEX][hapmap]
rs1470895	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1470896	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1968717	0.82[AMR][1000 genomes]
rs2278900	0.89[CHD][hapmap];0.83[MEX][hapmap]
rs2290423	0.85[CEU][hapmap];0.96[MEX][hapmap]
rs2290424	0.90[CHD][hapmap];0.84[MEX][hapmap]
rs2290425	0.90[CHD][hapmap];0.84[MEX][hapmap]
rs3763873	0.85[CEU][hapmap];0.85[GIH][hapmap];0.86[TSI][hapmap];0.85[EUR][1000 genomes]
rs3763874	0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.97[ASN][1000 genomes]
rs3763877	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs41369549	0.83[MEX][hapmap]
rs4810	0.84[MEX][hapmap]
rs4910048	0.81[CEU][hapmap]
rs4910468	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6486394	0.90[CHD][hapmap]
rs7104568	0.84[MEX][hapmap]
rs7122252	0.85[CEU][hapmap];0.96[MEX][hapmap]
rs723297	0.90[CHD][hapmap]
rs727405	0.85[CEU][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];0.86[TSI][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs729313	0.90[CHD][hapmap]
rs7926589	0.88[ASW][hapmap];0.89[CEU][hapmap];0.87[CHD][hapmap];0.82[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.91[TSI][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7927350	0.84[CEU][hapmap];0.96[MEX][hapmap];0.85[MKK][hapmap]
rs7939724	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7944578	0.85[CEU][hapmap];0.96[MEX][hapmap]
rs8785	0.84[CEU][hapmap];0.91[MEX][hapmap]
rs972594	0.87[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427882	chr11:9431600-9626580	Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
2	nsv553467	chr11:9518551-9648721	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10770037	SNORA23	cis	cerebellum	SCAN
rs10770037	IPO7	Cis_1M	lymphoblastoid	RTeQTL
rs10770037	SNORA23	cis	parietal	SCAN

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9484600-9544800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr11:9491400-9551600	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr11:9521000-9545200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr11:9523400-9550800	Weak transcription	Colonic Mucosa	Colon
5	chr11:9523400-9551000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:9528000-9540000	Strong transcription	Fetal Thymus	thymus
7	chr11:9528800-9550400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr11:9529200-9550800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr11:9530000-9541000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr11:9530200-9540000	Strong transcription	HUES64 Cell Line	embryonic stem cell
11	chr11:9530200-9540200	Strong transcription	Fetal Muscle Trunk	muscle
12	chr11:9530200-9541400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr11:9530200-9541400	Strong transcription	Adipose Nuclei	Adipose
14	chr11:9530200-9544600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr11:9530200-9551000	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr11:9531000-9550800	Weak transcription	Pancreas	Pancrea
17	chr11:9532600-9546400	Weak transcription	Stomach Mucosa	stomach
18	chr11:9533400-9541600	Strong transcription	Primary B cells from peripheral blood	blood
19	chr11:9533400-9550600	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr11:9533600-9539800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr11:9533600-9539800	Strong transcription	Fetal Lung	lung
22	chr11:9533600-9540000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr11:9533600-9540000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr11:9533600-9540000	Strong transcription	K562	blood
25	chr11:9533600-9541200	Strong transcription	Primary B cells from cord blood	blood
26	chr11:9533600-9541400	Strong transcription	Primary T cells from cord blood	blood
27	chr11:9533800-9540200	Strong transcription	GM12878-XiMat	blood
28	chr11:9534000-9539800	Strong transcription	HUES6 Cell Line	embryonic stem cell
29	chr11:9534000-9539800	Strong transcription	Dnd41	blood
30	chr11:9534000-9540000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr11:9534000-9540000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr11:9534000-9540000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr11:9534000-9540000	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr11:9534000-9540000	Strong transcription	Osteobl	bone
35	chr11:9534000-9541600	Strong transcription	Liver	Liver
36	chr11:9534000-9543800	Strong transcription	Primary T helper cells PMA-I stimulated	--
37	chr11:9534000-9544600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr11:9534200-9540000	Strong transcription	Fetal Brain Female	brain
39	chr11:9534600-9545800	Weak transcription	Fetal Heart	heart
40	chr11:9534600-9546800	Weak transcription	Gastric	stomach
41	chr11:9534600-9556800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr11:9535000-9548400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr11:9535000-9548800	Weak transcription	NHEK	skin
44	chr11:9535200-9541200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr11:9535200-9548800	Weak transcription	Fetal Brain Male	brain
46	chr11:9535200-9551200	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr11:9535400-9550800	Weak transcription	Brain Anterior Caudate	brain
48	chr11:9535800-9548600	Weak transcription	Rectal Smooth Muscle	rectum
49	chr11:9535800-9549000	Weak transcription	Aorta	Aorta
50	chr11:9535800-9550800	Weak transcription	Esophagus	oesophagus

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