Variant report

Variant	rs13429613
Chromosome Location	chr2:113489612-113489613
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:113488382..113489971-chr2:113681773..113683855,2	MCF-7	breast:
2	chr2:113484570..113488496-chr2:113489411..113495681,5	K562	blood:
3	chr2:113484246..113487026-chr2:113487818..113491393,4	MCF-7	breast:
4	chr2:113402071..113405083-chr2:113489239..113491182,3	K562	blood:
5	chr2:113402130..113405083-chr2:113489239..113490836,2	K562	blood:
6	chr2:113340842..113343108-chr2:113489160..113490667,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144136	Chromatin interaction
ENSG00000144130	Chromatin interaction
ENSG00000237753	Chromatin interaction
ENSG00000125611	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10165537	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10187872	0.98[EUR][1000 genomes]
rs10193063	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10200192	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10203064	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11123148	0.98[EUR][1000 genomes]
rs11123149	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12463996	0.98[ASN][1000 genomes]
rs12475027	0.94[ASN][1000 genomes]
rs12622683	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13013602	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13015273	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13016817	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13019249	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13026263	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13036237	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13382217	0.85[ASN][1000 genomes]
rs17649681	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2862226	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3811040	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3827761	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4261731	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4848298	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4849118	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55762606	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58694576	0.86[ASN][1000 genomes]
rs6706663	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6712572	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6721044	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6721292	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6753803	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7577241	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7591704	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7599690	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7607470	0.93[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	nsv428724	chr2:113376894-113555421	Genic enhancers Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv1010106	chr2:113394981-113556071	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv526301	chr2:113451498-113495785	Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:113484200-113497200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr2:113484400-113494200	Weak transcription	A549	lung
3	chr2:113484400-113494800	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr2:113484400-113495000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr2:113484400-113495600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr2:113484400-113495600	Weak transcription	Thymus	Thymus
7	chr2:113484400-113495800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr2:113484400-113495800	Weak transcription	GM12878-XiMat	blood
9	chr2:113484400-113496400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr2:113484400-113507400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr2:113484600-113494200	Weak transcription	Fetal Thymus	thymus
12	chr2:113484600-113507600	Weak transcription	Colonic Mucosa	Colon
13	chr2:113484800-113490000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr2:113484800-113490400	Weak transcription	Fetal Brain Male	brain
15	chr2:113484800-113490400	Weak transcription	Fetal Intestine Large	intestine
16	chr2:113484800-113494400	Weak transcription	NHEK	skin
17	chr2:113484800-113494600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr2:113484800-113494800	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr2:113484800-113495600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr2:113484800-113496200	Weak transcription	NHDF-Ad	bronchial
21	chr2:113484800-113507600	Weak transcription	Primary B cells from cord blood	blood
22	chr2:113485000-113494800	Weak transcription	Dnd41	blood
23	chr2:113485200-113494800	Weak transcription	HMEC	breast
24	chr2:113486000-113491000	Weak transcription	Fetal Muscle Leg	muscle
25	chr2:113486200-113494400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr2:113486200-113494600	Weak transcription	Fetal Stomach	stomach
27	chr2:113486200-113495000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr2:113486400-113490600	Weak transcription	Fetal Lung	lung
29	chr2:113486400-113491200	Weak transcription	Fetal Heart	heart
30	chr2:113486400-113495800	Weak transcription	HUVEC	blood vessel
31	chr2:113486600-113496200	Weak transcription	Placenta	Placenta
32	chr2:113486600-113511600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr2:113487400-113491200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr2:113487600-113495800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr2:113487600-113495800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr2:113487600-113496000	Weak transcription	Primary hematopoietic stem cells	blood
37	chr2:113488200-113494200	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr2:113488200-113494800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr2:113488200-113495800	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr2:113488200-113495800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr2:113488200-113507400	Weak transcription	Spleen	Spleen
42	chr2:113488600-113495200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr2:113489400-113491200	Weak transcription	Fetal Kidney	kidney
44	chr2:113489400-113491200	Weak transcription	K562	blood
45	chr2:113489600-113494400	Weak transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links