Variant report

Variant	rs17694127
Chromosome Location	chr9:26862377-26862378
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	chr9:26859892..26862595-chr9:26891089..26892734,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120159	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10511791	0.83[CEU][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10511792	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs10511795	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10511797	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs10967586	0.84[CEU][hapmap]
rs12344894	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12353269	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1336332	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1541145	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs16910814	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16910873	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs17694003	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17694087	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17694324	0.91[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs17694499	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs17756179	0.91[CEU][hapmap];1.00[JPT][hapmap]
rs17756299	1.00[JPT][hapmap]
rs2184740	0.87[EUR][1000 genomes]
rs57890470	0.90[EUR][1000 genomes]
rs59175724	0.88[EUR][1000 genomes]
rs62544395	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544396	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544399	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544401	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544402	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544403	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544404	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544406	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62544411	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62544412	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62544413	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62544434	0.90[EUR][1000 genomes]
rs62544435	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62544437	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62544440	0.88[EUR][1000 genomes]
rs62544453	0.85[EUR][1000 genomes]
rs7018962	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7036055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7036871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7044910	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73433937	0.83[EUR][1000 genomes]
rs7868649	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7871722	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7874676	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7875314	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[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	nsv1026827	chr9:26693515-26904699	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17694127	CAAP1	cis	Artery Tibial	GTEx

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26822200-26889400	Weak transcription	Psoas Muscle	Psoas
2	chr9:26830200-26865400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:26832200-26866800	Weak transcription	Gastric	stomach
4	chr9:26832200-26878400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr9:26834000-26882400	Weak transcription	HUVEC	blood vessel
6	chr9:26834200-26870600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:26834200-26878400	Weak transcription	Brain Angular Gyrus	brain
8	chr9:26834200-26878600	Weak transcription	Spleen	Spleen
9	chr9:26834200-26880200	Weak transcription	Lung	lung
10	chr9:26834200-26880200	Weak transcription	NHEK	skin
11	chr9:26834200-26882200	Weak transcription	HMEC	breast
12	chr9:26834200-26888200	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr9:26834200-26891200	Weak transcription	NHDF-Ad	bronchial
14	chr9:26836400-26879600	Weak transcription	Esophagus	oesophagus
15	chr9:26836600-26891400	Weak transcription	Brain Substantia Nigra	brain
16	chr9:26838000-26878200	Weak transcription	Brain Germinal Matrix	brain
17	chr9:26838200-26879600	Weak transcription	Pancreas	Pancrea
18	chr9:26840600-26882400	Weak transcription	Brain Cingulate Gyrus	brain
19	chr9:26840800-26865400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr9:26840800-26879800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:26841200-26879800	Weak transcription	Colonic Mucosa	Colon
22	chr9:26841600-26862600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr9:26842600-26882200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:26842800-26879600	Weak transcription	Thymus	Thymus
25	chr9:26843200-26878400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr9:26846400-26870600	Weak transcription	Fetal Stomach	stomach
27	chr9:26846600-26881600	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr9:26847000-26883000	Weak transcription	K562	blood
29	chr9:26847400-26863200	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr9:26851400-26878600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr9:26851400-26888000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr9:26851800-26888600	Weak transcription	Fetal Heart	heart
33	chr9:26851800-26891600	Weak transcription	Stomach Mucosa	stomach
34	chr9:26852400-26888000	Weak transcription	NHLF	lung
35	chr9:26852800-26876000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:26853200-26878600	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr9:26853600-26878200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr9:26853800-26870600	Weak transcription	Sigmoid Colon	Sigmoid Colon
39	chr9:26853800-26878400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr9:26853800-26878400	Weak transcription	Aorta	Aorta
41	chr9:26855000-26882200	Weak transcription	Right Ventricle	heart
42	chr9:26855400-26880200	Weak transcription	HepG2	liver
43	chr9:26855800-26888200	Weak transcription	NH-A	brain
44	chr9:26856000-26878800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr9:26856000-26881600	Weak transcription	Brain Hippocampus Middle	brain
46	chr9:26856000-26882200	Weak transcription	Brain Anterior Caudate	brain
47	chr9:26856000-26882200	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr9:26856200-26865800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:26856200-26866200	Weak transcription	Cortex derived primary cultured neurospheres	brain
50	chr9:26856200-26878400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links