Variant report

Variant	rs59841233
Chromosome Location	chr9:116061671-116061672
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116039888..116041521-chr9:116060320..116062417,2	K562	blood:
2	chr9:116060077..116063011-chr9:116109868..116112387,2	MCF-7	breast:
3	chr9:116060084..116062548-chr9:116172614..116174498,2	K562	blood:

Variant related genes	Relation type
ENSG00000136875	Chromatin interaction
ENSG00000148229	Chromatin interaction
ENSG00000157653	Chromatin interaction
ENSG00000119411	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10817476	0.93[ASN][1000 genomes]
rs10817477	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10981711	0.89[EUR][1000 genomes]
rs10981714	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981718	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981719	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10981721	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981725	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10981734	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981736	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10981754	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12684385	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13289574	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16932083	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16932730	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16932806	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2296075	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2296076	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2418249	0.98[EUR][1000 genomes]
rs28440160	0.85[ASN][1000 genomes]
rs28480972	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34289746	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34294772	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34429100	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34749539	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35275471	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35772163	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35860025	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35915957	0.89[AMR][1000 genomes]
rs3810920	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61161242	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71503561	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7850003	0.94[EUR][1000 genomes]
rs7860625	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59841233	CDC26	cis	lung	GTEx

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116050000-116062000	Weak transcription	Stomach Mucosa	stomach
2	chr9:116054200-116065000	Weak transcription	Fetal Kidney	kidney
3	chr9:116054600-116065200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr9:116054800-116062200	Weak transcription	Colonic Mucosa	Colon
5	chr9:116054800-116062200	Weak transcription	Pancreas	Pancrea
6	chr9:116054800-116065200	Weak transcription	Esophagus	oesophagus
7	chr9:116055000-116063800	Weak transcription	Spleen	Spleen
8	chr9:116055200-116085200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr9:116055600-116062200	Weak transcription	A549	lung
10	chr9:116055800-116061800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr9:116055800-116062000	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:116056000-116062000	Weak transcription	Gastric	stomach
13	chr9:116056000-116087000	Weak transcription	Thymus	Thymus
14	chr9:116056200-116062200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr9:116056200-116062200	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr9:116056200-116062200	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:116056200-116062200	Weak transcription	HUVEC	blood vessel
18	chr9:116056200-116062600	Weak transcription	Primary B cells from cord blood	blood
19	chr9:116056400-116061800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr9:116056400-116064600	Weak transcription	Fetal Intestine Large	intestine
21	chr9:116056600-116062200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:116056600-116062200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:116056600-116062200	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr9:116056600-116062400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr9:116056600-116065400	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr9:116056800-116062200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:116056800-116062200	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr9:116056800-116062600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr9:116056800-116063200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr9:116056800-116065000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr9:116056800-116065200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:116057400-116062200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr9:116058400-116064600	Weak transcription	HepG2	liver
34	chr9:116059200-116062000	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr9:116061000-116062400	Enhancers	H1 Cell Line	embryonic stem cell
36	chr9:116061000-116064800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr9:116061400-116065200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr9:116061600-116062000	Bivalent Enhancer	K562	blood
39	chr9:116061600-116062600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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