Variant report

Variant	rs58858596
Chromosome Location	chr11:64968186-64968187
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:64957883-64971312	K562	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:64881531..64883616-chr11:64967521..64970202,2	K562	blood:
2	chr11:64883442..64885568-chr11:64967218..64969741,2	MCF-7	breast:
3	chr11:64881095..64883616-chr11:64967076..64970202,3	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPDYC-2	chr11:64966921-64969518	expReg_chr11_5938_+

No data

Variant related genes	Relation type
CAPN1	TF binding region
ENSG00000174276	Chromatin interaction
ENSG00000255173	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11605576	0.84[ASN][1000 genomes]
rs11605632	0.82[ASN][1000 genomes]
rs12416930	0.86[ASN][1000 genomes]
rs12417272	0.91[ASN][1000 genomes]
rs12420456	0.84[ASN][1000 genomes]
rs12422027	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12800339	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17583	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17881590	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17886894	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2271448	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2277307	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34007842	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34281454	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3825072	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3953797	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6591178	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67698652	0.84[ASN][1000 genomes]
rs7933509	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][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	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases
2	nsv897713	chr11:64915042-65000719	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64950400-64973200	Weak transcription	Fetal Kidney	kidney
2	chr11:64950600-64992400	Weak transcription	Right Atrium	heart
3	chr11:64951000-64973600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr11:64951000-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:64951200-64968400	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr11:64951200-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr11:64951400-64979200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr11:64951600-64976400	Weak transcription	Fetal Brain Male	brain
9	chr11:64951600-64979600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr11:64951800-64968800	Strong transcription	Rectal Mucosa Donor 29	rectum
11	chr11:64951800-64969000	Strong transcription	Skeletal Muscle Female	skeletal muscle
12	chr11:64952400-64972800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr11:64952400-64980200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr11:64952400-64992800	Weak transcription	Fetal Heart	heart
15	chr11:64952800-64968400	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr11:64952800-64978000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr11:64953600-64971800	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr11:64953600-64978600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr11:64954000-64968200	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr11:64954200-64968400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr11:64954600-64973400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr11:64955200-64973000	Weak transcription	Stomach Mucosa	stomach
23	chr11:64957400-64973200	Weak transcription	Brain Substantia Nigra	brain
24	chr11:64957600-64973000	Weak transcription	Brain Angular Gyrus	brain
25	chr11:64957600-64975600	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr11:64958000-64972200	Weak transcription	HepG2	liver
27	chr11:64958000-64972400	Weak transcription	Brain Cingulate Gyrus	brain
28	chr11:64958000-64972600	Weak transcription	Brain Anterior Caudate	brain
29	chr11:64958000-64972600	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr11:64958000-64973200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr11:64958000-64973800	Weak transcription	Psoas Muscle	Psoas
32	chr11:64958200-64971600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr11:64958200-64971600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr11:64958200-64972000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr11:64958400-64971400	Weak transcription	Pancreas	Pancrea
36	chr11:64958400-64971400	Weak transcription	NHLF	lung
37	chr11:64958600-64970600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr11:64958600-64973000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr11:64958800-64970400	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr11:64959800-64972600	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr11:64960000-64972600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr11:64960200-64971400	Weak transcription	HSMMtube	muscle
43	chr11:64960400-64971800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr11:64961000-64968400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:64961200-64972000	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr11:64961600-64969000	Strong transcription	Primary T helper cells PMA-I stimulated	--
47	chr11:64961800-64972000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr11:64962000-64968400	Strong transcription	Primary B cells from cord blood	blood
49	chr11:64962400-64971800	Weak transcription	Rectal Smooth Muscle	rectum
50	chr11:64962400-64972600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links