Variant report

Variant	rs4910063
Chromosome Location	chr11:9805324-9805325
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1032550	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10770060	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10770064	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10770065	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840305	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10840306	0.94[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042493	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12788348	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1875029	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1875030	0.86[EUR][1000 genomes]
rs1983002	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1996794	0.90[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34328537	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs34690050	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35401279	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs360136	1.00[JPT][hapmap]
rs360137	1.00[JPT][hapmap]
rs360147	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs360157	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs3751000	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs415895	0.95[JPT][hapmap]
rs429835	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs440377	0.83[ASN][1000 genomes]
rs4910499	1.00[JPT][hapmap]
rs7126913	0.92[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7934930	0.94[ASN][1000 genomes]
rs7935673	0.95[ASN][1000 genomes]
rs960909	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv1053369	chr11:9647837-9876054	Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv553468	chr11:9667828-9827871	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv896987	chr11:9759918-9885849	Strong transcription Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	esv3384280	chr11:9766350-9911228	Flanking Bivalent TSS/Enh Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4910063	SWAP70	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9780600-9813200	Weak transcription	Small Intestine	intestine
2	chr11:9781600-9809000	Weak transcription	Fetal Brain Male	brain
3	chr11:9795200-9812800	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr11:9797400-9821800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr11:9797800-9811800	Strong transcription	Cortex derived primary cultured neurospheres	brain
6	chr11:9798000-9809000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr11:9798200-9810400	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr11:9798600-9811600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr11:9799000-9806200	Strong transcription	Fetal Muscle Leg	muscle
10	chr11:9799000-9809200	Strong transcription	Fetal Stomach	stomach
11	chr11:9799200-9806200	Strong transcription	Adipose Nuclei	Adipose
12	chr11:9799200-9812000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr11:9799200-9812200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr11:9799600-9805400	Weak transcription	Right Atrium	heart
15	chr11:9799600-9806200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr11:9799600-9810600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr11:9799600-9823400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr11:9799800-9811600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr11:9799800-9812000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr11:9799800-9812200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr11:9799800-9812200	Strong transcription	Liver	Liver
22	chr11:9799800-9814200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr11:9800000-9807000	Strong transcription	Ovary	ovary
24	chr11:9800200-9805600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr11:9800200-9823800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr11:9800800-9805400	Strong transcription	HSMM	muscle
27	chr11:9800800-9807200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr11:9801000-9806400	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr11:9801200-9805400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr11:9801200-9809600	Strong transcription	Duodenum Smooth Muscle	Duodenum
31	chr11:9801600-9823800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr11:9801800-9805400	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr11:9802600-9805400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr11:9802600-9810600	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr11:9802800-9808200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr11:9802800-9808200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr11:9802800-9809400	Weak transcription	HMEC	breast
38	chr11:9802800-9810200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr11:9803000-9806800	Weak transcription	Primary T helper cells fromperipheralblood	blood
40	chr11:9803000-9823400	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr11:9803000-9823400	Weak transcription	Psoas Muscle	Psoas
42	chr11:9803200-9806200	Weak transcription	NHEK	skin
43	chr11:9803200-9806400	Weak transcription	Primary B cells from peripheral blood	blood
44	chr11:9803200-9808000	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr11:9803200-9808000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr11:9803200-9809000	Weak transcription	Fetal Thymus	thymus
47	chr11:9803200-9809000	Weak transcription	Right Ventricle	heart
48	chr11:9803200-9809800	Weak transcription	HUVEC	blood vessel
49	chr11:9803200-9811400	Weak transcription	Brain Substantia Nigra	brain
50	chr11:9803200-9828600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links