Variant report

Variant	rs10125421
Chromosome Location	chr9:14133378-14133379
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:14131132..14132855-chr9:14133037..14134581,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10114590	0.91[AMR][1000 genomes]
rs10114939	0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10117741	0.84[AMR][1000 genomes]
rs10120754	0.91[AMR][1000 genomes]
rs10122366	0.91[AMR][1000 genomes]
rs10122412	0.82[AMR][1000 genomes]
rs10123886	0.91[AMR][1000 genomes]
rs10124557	0.91[AMR][1000 genomes]
rs10125399	0.82[AMR][1000 genomes]
rs10810101	0.84[AMR][1000 genomes]
rs10810102	0.82[AMR][1000 genomes]
rs10961388	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10961397	0.91[AMR][1000 genomes]
rs10961398	0.84[AMR][1000 genomes]
rs11788568	0.91[AMR][1000 genomes]
rs11789923	0.84[AMR][1000 genomes]
rs12335788	1.00[AMR][1000 genomes]
rs12335815	1.00[AMR][1000 genomes]
rs12340536	1.00[AMR][1000 genomes]
rs12341599	1.00[AMR][1000 genomes]
rs12344875	0.91[AMR][1000 genomes]
rs12344913	1.00[AMR][1000 genomes]
rs12344948	0.91[AMR][1000 genomes]
rs12349598	0.91[AMR][1000 genomes]
rs12351537	0.84[AMR][1000 genomes]
rs12353469	0.82[AMR][1000 genomes]
rs16931417	1.00[AMR][1000 genomes]
rs28440824	0.81[AMR][1000 genomes]
rs7027294	0.91[AMR][1000 genomes]
rs7033653	0.91[AMR][1000 genomes]
rs7034124	0.86[EUR][1000 genomes]
rs7042124	1.00[AMR][1000 genomes]
rs7042142	1.00[AMR][1000 genomes]
rs7047737	0.91[AMR][1000 genomes]
rs73411963	0.91[AMR][1000 genomes]
rs73645005	0.91[AMR][1000 genomes]
rs7846990	0.91[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033764	chr9:13764918-14226168	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv892593	chr9:13948798-14233159	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv429998	chr9:14043516-14214688	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	esv1802101	chr9:14125907-14137320	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv892595	chr9:14129951-14168029	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14097400-14135400	Weak transcription	HSMMtube	muscle
2	chr9:14108800-14143800	Weak transcription	Fetal Intestine Small	intestine
3	chr9:14116400-14137800	Weak transcription	Small Intestine	intestine
4	chr9:14116600-14133400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:14116600-14159200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr9:14116600-14179200	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:14116800-14156000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:14117000-14171200	Weak transcription	Hela-S3	cervix
9	chr9:14120200-14159000	Weak transcription	NHLF	lung
10	chr9:14120600-14133600	Weak transcription	Right Ventricle	heart
11	chr9:14120600-14151600	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr9:14120600-14154800	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr9:14120600-14159000	Weak transcription	NH-A	brain
14	chr9:14120800-14135400	Weak transcription	NHEK	skin
15	chr9:14121600-14143600	Weak transcription	Brain Substantia Nigra	brain
16	chr9:14123800-14136000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:14123800-14198600	Weak transcription	Gastric	stomach
18	chr9:14125800-14133800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:14126400-14135400	Weak transcription	HMEC	breast
20	chr9:14126400-14148200	Weak transcription	Placenta	Placenta
21	chr9:14126600-14142000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr9:14126800-14144800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr9:14127000-14133400	Weak transcription	Adipose Nuclei	Adipose
24	chr9:14127000-14136600	Weak transcription	A549	lung
25	chr9:14127000-14139200	Weak transcription	HSMM	muscle
26	chr9:14127000-14140600	Weak transcription	Lung	lung
27	chr9:14127000-14146000	Weak transcription	Osteobl	bone
28	chr9:14127000-14151200	Weak transcription	Aorta	Aorta
29	chr9:14127000-14156400	Weak transcription	Duodenum Mucosa	Duodenum
30	chr9:14128000-14133400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:14128200-14139400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr9:14130800-14133600	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr9:14131200-14135000	Strong transcription	Fetal Muscle Leg	muscle
34	chr9:14131400-14135400	Strong transcription	Fetal Muscle Trunk	muscle
35	chr9:14131400-14136600	Weak transcription	Fetal Brain Male	brain
36	chr9:14131600-14134800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:14131800-14133600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr9:14131800-14133600	Weak transcription	Fetal Heart	heart
39	chr9:14131800-14173200	Weak transcription	Pancreas	Pancrea
40	chr9:14132000-14133400	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr9:14132000-14135400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr9:14132000-14144600	Weak transcription	Fetal Brain Female	brain
43	chr9:14132600-14133800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr9:14132800-14134200	Enhancers	Liver	Liver
45	chr9:14132800-14134400	Enhancers	Colon Smooth Muscle	Colon
46	chr9:14132800-14134600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr9:14132800-14136600	Enhancers	Fetal Lung	lung
48	chr9:14133000-14134200	Enhancers	Rectal Smooth Muscle	rectum
49	chr9:14133000-14137600	Strong transcription	HUVEC	blood vessel
50	chr9:14133000-14144800	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links