Variant report

Variant	rs1549244
Chromosome Location	chr5:57431709-57431710
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:57430456..57432947-chr5:57435007..57437733,2	MCF-7	breast:
2	chr5:57429951..57431867-chr5:57754468..57758513,3	MCF-7	breast:
3	chr5:57431570..57434404-chr5:57434727..57436784,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10461644	1.00[CEU][hapmap];1.00[LWK][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs10461645	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs10491418	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10491419	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1125324	1.00[CEU][hapmap];1.00[LWK][hapmap];0.84[EUR][1000 genomes]
rs13152942	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13153091	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13155421	0.87[EUR][1000 genomes]
rs13159010	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13159117	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13160117	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13164786	0.83[EUR][1000 genomes]
rs13168168	0.87[EUR][1000 genomes]
rs13170721	0.87[EUR][1000 genomes]
rs13173426	1.00[AFR][1000 genomes]
rs13176924	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs13177963	0.86[EUR][1000 genomes]
rs13178678	0.81[EUR][1000 genomes]
rs13179148	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13181962	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13185082	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13185712	0.87[EUR][1000 genomes]
rs13186152	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13186306	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13187466	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13190103	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1565335	0.83[EUR][1000 genomes]
rs17367557	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17367866	1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17368537	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17368635	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17368691	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17368889	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17368931	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17368965	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17369063	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17369443	1.00[CEU][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17369506	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17369617	1.00[CEU][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17369645	1.00[CEU][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17370357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17433232	1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17433281	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17433351	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17433413	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes]
rs17433449	1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17433525	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17433602	0.85[CEU][hapmap];1.00[LWK][hapmap];0.88[TSI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17433644	1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs17434105	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17434147	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17434756	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17434985	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17435116	1.00[CEU][hapmap];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17750857	0.87[EUR][1000 genomes]
rs17750946	0.87[EUR][1000 genomes]
rs17750970	0.81[EUR][1000 genomes]
rs17751024	0.82[CEU][hapmap];0.87[EUR][1000 genomes]
rs2130362	0.85[CEU][hapmap];1.00[LWK][hapmap]
rs2409072	0.81[EUR][1000 genomes]
rs2898084	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs34028264	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34088369	0.83[EUR][1000 genomes]
rs34140627	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34145550	0.86[EUR][1000 genomes]
rs34183980	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34283705	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34357926	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34362402	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34393614	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34469485	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34486088	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34540977	0.81[EUR][1000 genomes]
rs34558865	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34561456	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34563650	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34668052	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34728348	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34739332	0.81[EUR][1000 genomes]
rs34839607	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34900511	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs34911212	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35020899	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35102344	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35132533	0.87[EUR][1000 genomes]
rs35288659	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35474010	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35480511	0.86[EUR][1000 genomes]
rs35493107	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs35559784	0.86[EUR][1000 genomes]
rs35585983	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35637947	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35699974	0.86[EUR][1000 genomes]
rs36003001	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs36056213	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs36118761	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4328995	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58405952	0.91[EUR][1000 genomes]
rs71624184	0.86[EUR][1000 genomes]
rs71624185	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7734877	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7735526	1.00[CEU][hapmap];1.00[TSI][hapmap];0.86[EUR][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	nsv1033051	chr5:57380218-57471801	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1549244	ANKRD55	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57426600-57432600	Enhancers	HSMMtube	muscle
2	chr5:57429000-57432600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr5:57429000-57432600	Enhancers	NHLF	lung
4	chr5:57429000-57433400	Enhancers	Fetal Muscle Leg	muscle
5	chr5:57429200-57432600	Enhancers	Muscle Satellite Cultured Cells	--
6	chr5:57429200-57432600	Enhancers	HSMM	muscle
7	chr5:57429200-57432600	Enhancers	Osteobl	bone
8	chr5:57429400-57432600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:57429400-57432600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr5:57430400-57432600	Enhancers	NHDF-Ad	bronchial
11	chr5:57430600-57433400	Weak transcription	Brain Germinal Matrix	brain
12	chr5:57431000-57431800	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr5:57431200-57432000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr5:57431400-57431800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:57431400-57431800	Enhancers	Skeletal Muscle Male	skeletal muscle
16	chr5:57431400-57432200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr5:57431400-57432200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr5:57431400-57432400	Enhancers	NH-A	brain
19	chr5:57431400-57432600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:57431600-57431800	Enhancers	Rectal Smooth Muscle	rectum
21	chr5:57431600-57432000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr5:57431600-57432000	Enhancers	HUES6 Cell Line	embryonic stem cell
23	chr5:57431600-57432400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links