Variant report

Variant	rs9696054
Chromosome Location	chr9:97457721-97457722
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97457022..97459092-chr9:97482059..97483636,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10081702	0.84[EUR][1000 genomes]
rs10117499	0.96[EUR][1000 genomes]
rs10117956	0.84[EUR][1000 genomes]
rs10118261	0.96[EUR][1000 genomes]
rs10119354	0.96[EUR][1000 genomes]
rs10124091	0.84[EUR][1000 genomes]
rs10124217	0.84[EUR][1000 genomes]
rs10993307	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10993320	0.93[EUR][1000 genomes]
rs12115845	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12339300	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12344517	0.84[EUR][1000 genomes]
rs12344604	0.96[EUR][1000 genomes]
rs12346245	0.84[EUR][1000 genomes]
rs12347853	0.81[EUR][1000 genomes]
rs12350284	0.84[EUR][1000 genomes]
rs13287373	0.84[EUR][1000 genomes]
rs13295608	0.84[EUR][1000 genomes]
rs13298361	0.84[EUR][1000 genomes]
rs1571144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs16911536	0.84[EUR][1000 genomes]
rs16911594	0.84[EUR][1000 genomes]
rs34089610	0.85[EUR][1000 genomes]
rs34165368	0.85[EUR][1000 genomes]
rs34198898	0.98[EUR][1000 genomes]
rs34274440	0.91[EUR][1000 genomes]
rs34540802	0.85[EUR][1000 genomes]
rs34705993	0.95[EUR][1000 genomes]
rs35060589	0.85[EUR][1000 genomes]
rs35121098	0.98[EUR][1000 genomes]
rs35414853	0.84[EUR][1000 genomes]
rs35823631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35840707	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35984007	0.95[EUR][1000 genomes]
rs36025648	0.85[EUR][1000 genomes]
rs36039841	0.85[EUR][1000 genomes]
rs55718833	0.96[EUR][1000 genomes]
rs56268713	0.93[EUR][1000 genomes]
rs56338410	0.85[EUR][1000 genomes]
rs61247576	0.85[EUR][1000 genomes]
rs6479563	0.84[EUR][1000 genomes]
rs67161795	0.84[EUR][1000 genomes]
rs67845333	0.85[EUR][1000 genomes]
rs7032765	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72747008	0.98[EUR][1000 genomes]
rs7850175	0.96[EUR][1000 genomes]
rs7859242	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7871632	0.84[EUR][1000 genomes]
rs7874823	0.96[EUR][1000 genomes]
rs9696547	0.81[AMR][1000 genomes];0.98[EUR][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv893597	chr9:97380597-97463435	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1041922	chr9:97444976-97536753	Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97454600-97457800	Enhancers	Brain Germinal Matrix	brain
2	chr9:97455200-97460200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:97455200-97460400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:97455800-97460200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr9:97456200-97462200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:97456200-97463200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:97456800-97460200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:97457000-97460200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:97457200-97460200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr9:97457200-97460200	Weak transcription	Fetal Kidney	kidney
11	chr9:97457200-97460400	Weak transcription	Fetal Muscle Leg	muscle
12	chr9:97457400-97458600	Weak transcription	Fetal Heart	heart
13	chr9:97457400-97458600	Weak transcription	Fetal Lung	lung
14	chr9:97457400-97459000	Weak transcription	Fetal Intestine Small	intestine
15	chr9:97457400-97459200	Weak transcription	Fetal Brain Male	brain
16	chr9:97457400-97459600	Weak transcription	HepG2	liver
17	chr9:97457400-97460200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:97457400-97460400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr9:97457400-97460400	Weak transcription	Gastric	stomach
20	chr9:97457400-97460400	Weak transcription	Pancreas	Pancrea
21	chr9:97457400-97460600	Weak transcription	Fetal Intestine Large	intestine
22	chr9:97457400-97465800	Weak transcription	Fetal Stomach	stomach
23	chr9:97457600-97459000	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links