Variant report

Variant	rs28528942
Chromosome Location	chr22:32147371-32147372
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:32146377..32149751-chr22:32262350..32266440,4	K562	blood:
2	chr22:31892308..31894120-chr22:32146815..32149656,2	MCF-7	breast:
3	chr22:32146290..32148295-chr22:32339910..32342124,2	MCF-7	breast:
4	chr22:32142746..32147740-chr22:32340513..32344780,7	K562	blood:
5	chr22:31890350..31892385-chr22:32144551..32147460,2	K562	blood:
6	chr22:32146663..32149554-chr22:32153281..32156141,2	K562	blood:

Variant related genes	Relation type
ENSG00000128254	Chromatin interaction
ENSG00000128245	Chromatin interaction
ENSG00000184708	Chromatin interaction
ENSG00000198089	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12165432	0.84[ASN][1000 genomes]
rs131225	0.82[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs131233	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs131244	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs131245	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs131250	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs131253	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs140078	0.89[ASN][1000 genomes]
rs140081	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2108108	0.82[EUR][1000 genomes]
rs3804087	0.84[ASN][1000 genomes]
rs5994420	0.82[ASN][1000 genomes]
rs5994427	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs5998072	0.82[ASN][1000 genomes]
rs5998086	0.86[ASN][1000 genomes]
rs5998119	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5998121	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs5998122	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs5998126	0.82[EUR][1000 genomes]
rs5998131	0.82[EUR][1000 genomes]
rs5998136	0.81[ASN][1000 genomes]
rs62238892	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73404115	0.83[ASN][1000 genomes]
rs760908	0.80[ASN][1000 genomes]
rs8141214	0.82[EUR][1000 genomes]
rs9621327	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1060929	chr22:32102701-32176860	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:32146200-32148400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr22:32146200-32148400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr22:32146200-32148600	Weak transcription	Small Intestine	intestine
4	chr22:32146200-32149200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr22:32146200-32149200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr22:32146200-32149200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr22:32146400-32148800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr22:32146600-32147400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr22:32146600-32147600	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr22:32146600-32148000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr22:32146600-32148200	Weak transcription	Right Atrium	heart
12	chr22:32146600-32148400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr22:32146600-32148400	Weak transcription	Osteobl	bone
14	chr22:32146600-32148600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr22:32146600-32148600	Weak transcription	Brain Germinal Matrix	brain
16	chr22:32146600-32148600	Weak transcription	Placenta	Placenta
17	chr22:32146600-32148600	Weak transcription	HMEC	breast
18	chr22:32146600-32148600	Weak transcription	NHLF	lung
19	chr22:32146600-32148800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr22:32146600-32149000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr22:32146600-32149000	Weak transcription	Esophagus	oesophagus
22	chr22:32146600-32149000	Weak transcription	Psoas Muscle	Psoas
23	chr22:32146600-32149000	Weak transcription	HSMM	muscle
24	chr22:32146600-32149000	Weak transcription	HSMMtube	muscle
25	chr22:32146600-32149200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr22:32146800-32147400	Enhancers	Adipose Nuclei	Adipose
27	chr22:32146800-32147400	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr22:32146800-32147400	Enhancers	GM12878-XiMat	blood
29	chr22:32146800-32148000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr22:32146800-32148000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr22:32146800-32148200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr22:32146800-32148200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr22:32146800-32148200	Weak transcription	Primary hematopoietic stem cells	blood
34	chr22:32146800-32148200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr22:32146800-32148400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr22:32146800-32148400	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr22:32146800-32148400	Weak transcription	Fetal Stomach	stomach
38	chr22:32146800-32148600	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr22:32146800-32148600	Weak transcription	Primary T cells from cord blood	blood
40	chr22:32146800-32148600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr22:32146800-32148600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr22:32146800-32148600	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr22:32146800-32148600	Weak transcription	HUVEC	blood vessel
44	chr22:32146800-32148600	Weak transcription	NHEK	skin
45	chr22:32146800-32148800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr22:32146800-32148800	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr22:32146800-32148800	Weak transcription	Fetal Brain Male	brain
48	chr22:32146800-32148800	Weak transcription	Fetal Lung	lung
49	chr22:32146800-32148800	Weak transcription	Stomach Mucosa	stomach
50	chr22:32146800-32148800	Weak transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links