Variant report

Variant	rs11024462
Chromosome Location	chr11:18094723-18094724
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:18087033..18088571-chr11:18092564..18095124,2	K562	blood:
2	chr11:18093261..18096256-chr11:18101995..18104742,3	K562	blood:
3	chr11:18029098..18031772-chr11:18092202..18096288,3	K562	blood:
4	chr11:18094663..18097873-chr11:18099803..18103495,3	K562	blood:

Variant related genes	Relation type
ENSG00000166788	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10444225	0.92[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10741736	0.85[EUR][1000 genomes]
rs10766452	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10766453	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1079785	0.92[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10832881	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024467	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024469	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024470	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11024472	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024474	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024475	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024477	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11024478	0.87[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11024480	0.97[EUR][1000 genomes]
rs11024487	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11024488	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11024491	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11024492	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12360537	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs12361971	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12365158	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12365751	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1399025	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs1824018	0.81[EUR][1000 genomes]
rs1980096	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1980097	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2085275	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs2124378	0.81[EUR][1000 genomes]
rs2271533	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2403246	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3741199	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4287320	0.82[EUR][1000 genomes]
rs4537731	0.92[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.95[YRI][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4756930	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4757610	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4757611	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4757613	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56001925	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61882529	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6486403	0.93[CEU][hapmap];0.89[CHB][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7102017	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7103885	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7104168	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7104856	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7106970	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7110238	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7113855	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7118250	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7119063	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7122118	0.96[CEU][hapmap];0.89[CHB][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7129345	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7130929	0.92[CEU][hapmap];0.94[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7931522	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7933593	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7936469	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7936878	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7937368	0.92[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7939791	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7943526	0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7944348	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7950282	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7950705	1.00[CHB][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7950928	0.92[CEU][hapmap];0.94[CHB][hapmap];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7951771	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs871699	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs907922	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs964833	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs964834	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs964835	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]

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	nsv949248	chr11:17791822-18692687	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv553591	chr11:18090519-18100022	Weak transcription Enhancers Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11024462	SAAL1	cis	Artery Tibial	GTEx
rs11024462	SERGEF	Cis_1M	lymphoblastoid	RTeQTL
rs11024462	SAAL1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:18070800-18102600	Weak transcription	Brain Hippocampus Middle	brain
2	chr11:18081400-18100400	Weak transcription	Primary B cells from peripheral blood	blood
3	chr11:18083200-18109000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr11:18083400-18102400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr11:18084800-18108400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr11:18085200-18097000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr11:18085200-18104200	Weak transcription	Fetal Intestine Small	intestine
8	chr11:18085200-18113000	Weak transcription	Fetal Brain Male	brain
9	chr11:18085600-18101000	Weak transcription	Thymus	Thymus
10	chr11:18085600-18102000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr11:18085800-18095600	Weak transcription	Primary B cells from cord blood	blood
12	chr11:18085800-18095800	Weak transcription	Adipose Nuclei	Adipose
13	chr11:18085800-18100600	Weak transcription	Fetal Kidney	kidney
14	chr11:18085800-18109600	Weak transcription	Spleen	Spleen
15	chr11:18086000-18095800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr11:18086000-18100000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr11:18086000-18101000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr11:18086000-18105600	Weak transcription	Right Ventricle	heart
19	chr11:18086200-18100600	Weak transcription	Brain Anterior Caudate	brain
20	chr11:18086400-18107600	Weak transcription	Lung	lung
21	chr11:18086600-18100600	Weak transcription	Liver	Liver
22	chr11:18087400-18099800	Weak transcription	Dnd41	blood
23	chr11:18087400-18100600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr11:18087400-18109800	Weak transcription	Gastric	stomach
25	chr11:18087400-18115800	Weak transcription	Pancreas	Pancrea
26	chr11:18087600-18099800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr11:18087600-18100400	Weak transcription	HMEC	breast
28	chr11:18087600-18102400	Weak transcription	Brain Germinal Matrix	brain
29	chr11:18087600-18105200	Weak transcription	NHEK	skin
30	chr11:18087800-18100400	Weak transcription	Fetal Brain Female	brain
31	chr11:18087800-18100800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr11:18088200-18100800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr11:18088600-18100400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr11:18088800-18101200	Weak transcription	Ovary	ovary
35	chr11:18089200-18099800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr11:18089200-18102400	Weak transcription	Primary T cells fromperipheralblood	blood
37	chr11:18089600-18100800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr11:18089600-18101000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr11:18089600-18102600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr11:18089800-18095600	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr11:18089800-18099800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr11:18089800-18100400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr11:18090000-18100600	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr11:18090200-18107600	Weak transcription	Aorta	Aorta
45	chr11:18090400-18100600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr11:18090600-18100800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr11:18090800-18100600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr11:18090800-18101600	Weak transcription	GM12878-XiMat	blood
49	chr11:18091000-18100600	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr11:18091400-18100600	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links